Citrus Sinensis ID: 038494

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------121
Protein Sequence
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQIQHLFDKK
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEEEEccHHHHHHHHHHHHccccccEEEEEcccccHHHHHHHHHHccccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccccccccccEEEEEEccHHHHccccccccEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccccHHHHHHHHcccccccHHHHHHHHHHcccccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEccHHHHHHHHHHccccEEEcccccccHHHHHHEEEEEEEEEEEEcccccccccccccccEEEEEEccccccccccccHHHcccccccEEEccccccccccccccccccccEEEcccccccccccccccccccEEEccccccccccHHHcccccccEEEccccccccccccccccccccccEEEccccccccccccccccccHHHHcccccccEEEEEEccccccccccccccccccEEEEcccccccccccccccEEEEEcccccccccccccccccccccccEEEcccccccccccccccccccccccEEEEEcccccEEEccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccEEEEccccccHHHcccccccccccccccccccEEEEccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccEEEEcccccccEEcccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccEEcccccccccccccccccccccEEEEEccccccccccccccccccccccEEEEEcccccccccccccccccEEEcccccccccccccccccccEEEccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHHHcccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccEEEEEEEcccccccHHHcccccHHHHcccccccccccEEEEEEccHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccccHHEEEcHcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccccccEEEEHHHHHHHHHHHHcccEEEEEEccccccccccccccEEEEEEEEcccccccccccccccccEEEEEcccccccccccHHHHHcccccEEEEEcccccccccccccccccccEEEEcccccccccccccccccEEEEEcccccHHcccHHcccccccEEEEcccccccccccccccccHcccEEEEcccHHHccccccccHHHHHHHHccccccEEEEccccccccccccccccHHHHEccccccccccccccccccHHHHHHHccccccccccccccccccccEEEEcccccccccccccccccccccccEEEEcccccccEccHHcccccccccccccEEEEcccccHHHcccccccccccccccEEEEEcccccHccccccccccccccccEEEEcccccHccccccccccHHHHHHHHHccccHcccccccccccccccEEcccccHHcccHHcHHccccccccccccEEEEEccccHHccccccccccccccccEEEEcccccccEccccccccccHcccccccccccEEEEccccccccccccccccccccccccEEEEcccccHccccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccHHHcccHcccccccccccccccccccccEEEccccHcHccccccccccccccEEEEcccccHcccccccccHHHHHccHHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYkrervgipvreatqQRDEIYKDVADWLNNVDEFISEGVaksiiddedrakkscfkgfcpnliSRYKLSKQAAKAAEAAASLvgkgnfssvshrpapestehmqakDFEAFDSRMKLFQDVVEALRNDKLniigvhgmggvgkTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASdldlnfdlndskphRAKQLCQRLTKEKRVLIILDNIWKKlgleeigipfgdvdekdrkqDLRRRTIILTSRskhlltndmnSQKIFLIEVLSKEEALQFFEKIVGnsakasafqpladeivgkcgglPVALSTVANAlknkklpvWKDALTQLrnsnpreihgmdanvCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLldgdaedevkmHDVIHVVAVSIASEklmfsipnvtnLKEEIEKIIQKGAIaisipygdiqelperlecpqlKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQlldlsncsslvviapnviskfsrleelymgdsfpqwdkveggsnaslaelkglsklttLEIQVQdaqmlpqdlvfvelpryricigeawgiwransetSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVvhelddgegfprlKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKlemtvgpdrekpttslgfneiiadddtapkvgipsslvnlkvskcQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFClenytlefpslervsmircpnmktfsqgilsipkpckvqvtekeegelhhwegnNLNSIMQKYYKEMIGFRDIWYLqlshfprlkeiwhgqalpvsfFNNLARLVVddctnmssaipANLLRCLNNlrrlevrncDSLEEVLRLEelnadkehigpmfpklsnlrlidlpklkrfcnftgniielpelryltiencpdmetfisnSTSVLHMTADNKEAQKLKSEENLLVANQIQHLFDKK
Flexible Loop (DISEMBL)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKEleykrervgipvreatqqrdeIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASlvgkgnfssvshrpapestEHMQAKDFEAFDSRMKLFQDVVEALRNDKLniigvhgmggvgKTTLVKQIAKQVMEDKVFDKVVMAEVtenpdvqkiqDKLASDLDLNfdlndskphrakqlcqrltkekrVLIILDniwkklgleeigipfgdvdekdrkqdlrrrtiiltsrskhlltndmnSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQlrnsnpreihgMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHivgsvgrvhRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKlemtvgpdrekpttsLGFNeiiadddtapkVGIPsslvnlkvskcQKIEEivghvgeevkenriAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTfsqgilsipkpCKVQVTEKEEGelhhwegnnlNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLeelnadkehigpmfpklsnLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQiqhlfdkk
Low Complexity Region (SEG)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQaakaaeaaaSLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKlasdldlnfdlndsKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQlklllllANGDSYLEISHLFFEGTEDLKVlslsgihfsslssslghliNLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQkieeivghvgeevkeNRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPAnllrclnnlrrlevrnCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQIQHLFDKK
Disordered region (IsUnstruct)
*****VSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKL******************************************FDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN**V**I***L**DLDLNFD*********KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVD*******LRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTV**********LGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVL*******************************
Disordered Region (DISOPRED)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDD*******CFKGFCPNLISRYKLSKQ*****************************************SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDL****************Q*LTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSA*ASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTV***********GFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLE**********PMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMET***************KEAQKLKSEENLLVANQIQHLFD**
Disordered Region (DISEMBL)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYK**********************************HMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQIQHLFDKK
Disordered Region (DISPRO)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASLVGKG********************DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQIQH*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNxxxxxxxxxxxxxxxxxxxxxCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQKLKSEENLLVANQIQHLFDKK
Positional Conservation
no confident homologs detected

---

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	1209	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.692	0.849	0.272	2e-68
O81825	919	Probable disease resistan	no	no	0.564	0.742	0.296	4e-60
Q42484	909	Disease resistance protei	no	no	0.567	0.754	0.268	1e-55
O22727	967	Probable disease resistan	no	no	0.444	0.556	0.291	9e-47
P60838	894	Probable disease resistan	no	no	0.476	0.644	0.284	1e-45
O64789	925	Probable disease resistan	no	no	0.473	0.618	0.282	2e-45
Q940K0	889	Probable disease resistan	no	no	0.417	0.568	0.298	2e-45
Q8RXS5	888	Probable disease resistan	no	no	0.492	0.670	0.275	2e-44
Q9C8T9	898	Putative disease resistan	no	no	0.523	0.704	0.256	5e-42
Q9FG91	848	Probable disease resistan	no	no	0.625	0.891	0.262	4e-41

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

 Score =  261 bits (668), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 247/907 (27%), Positives = 438/907 (48%), Gaps = 70/907 (7%)

Query: 13  IVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYK 72
           ++ E  + ++E    +++   K++S +  L   ++ L   +  +         +   +  
Sbjct: 7   VIGEILRLMYESTFSRVANAIKFKSNVKALNESLERLTELKGNMSEDHETLLTKDKPLRL 66

Query: 73  DVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASL 132
            +  W    +E IS    K+ +  E+R   SC     P      ++S++  K  +    L
Sbjct: 67  KLMRWQREAEEVIS----KARLKLEERV--SCGMSLRP------RMSRKLVKILDEVKML 114

Query: 133 VGKG--NFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGG 190
              G      +S    PE  EH+             +   + + L ++K   IGV GMGG
Sbjct: 115 EKDGIEFVDMLSVESTPERVEHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGG 174

Query: 191 VGKTTLVKQIAKQVMED---KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPH 247
           VGKTTLV+ +  ++ E+   + F  V+   V++  D +++Q ++A  LD++  + +S+  
Sbjct: 175 VGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEK 234

Query: 248 RAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH 307
            A+++   L KE++ L+ILD++WK + L+ +GIP        R ++ +   +ILTSR   
Sbjct: 235 LARRIYVGLMKERKFLLILDDVWKPIDLDLLGIP--------RTEENKGSKVILTSRFLE 286

Query: 308 LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV 367
            +   M +     ++ L +E+A + F K  G+  ++   + +A  +  +CGGLP+A+ TV
Sbjct: 287 -VCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITV 345

Query: 368 ANALKNKK-LPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTL 426
             A++ KK + +W   L++L  S P  I  ++  +   ++LSY+FLE D+AK  FLLC L
Sbjct: 346 GTAMRGKKNVKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLE-DKAKFCFLLCAL 403

Query: 427 FGEGTPIQVASLLRY--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMH 484
           F E   I+V  ++RY   +G  + + + E++ N     +++LK  CLL DGD  D VKMH
Sbjct: 404 FPEDYSIEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMH 463

Query: 485 DVIHVVAVSIASEKLMFS---IPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECP 541
           DV+   A+ I S     S   + + T L++  +  +      +S+    ++ LP+ +E  
Sbjct: 464 DVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEF 523

Query: 542 QLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDW 599
            +K  +LL  G+  L E+   F +    L++L+LSG    S  S SL  L +L +L L  
Sbjct: 524 CVKTSVLLLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRD 583

Query: 600 C-QLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISK 658
           C +L  + ++  L KLE+L    + I + P  + +L + + LDLS    L  I   V+S+
Sbjct: 584 CFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSR 643

Query: 659 FSRLEELYMGDSFPQWDKVEGGS---NASLAELKGLSKLTTLEIQVQDAQML--PQDLVF 713
            S LE L M  S  +W  V+G +    A++ E+  L +L  L I++  +  L   ++   
Sbjct: 644 LSSLETLDMTSSHYRWS-VQGETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWI 702

Query: 714 VELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELT 773
             L ++++ +G  + I R   +  RL   H   NVS +     +  LL  T  + L    
Sbjct: 703 KRLKKFQLVVGSRY-ILRTRHDKRRLTISHL--NVSQV----SIGWLLAYTTSLALNHCQ 755

Query: 774 GVQNVVHEL-DDGEGFPRLKHLWVERCSEILHIVGSVGRVHRK----------VFPLLES 822
           G++ ++ +L  D +GF  LK L +E    I++    V  V             + P LE 
Sbjct: 756 GIEAMMKKLVSDNKGFKNLKSLTIENV--IINTNSWVEMVSTNTSKQSSDILDLLPNLEE 813

Query: 823 LSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLL---RLQKVKV 879
           L L + ++LE     Q         LKIIE+  C KL+ L      RN L    L+++++
Sbjct: 814 LHLRR-VDLETFSELQTHLGLKLETLKIIEITMCRKLRTLLD---KRNFLTIPNLEEIEI 869

Query: 880 ASCNKLE 886
           + C+ L+
Sbjct: 870 SYCDSLQ 876

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 =  234 bits (596), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 214/722 (29%), Positives = 351/722 (48%), Gaps = 40/722 (5%)

Query: 183 IGVHGMGGVGKTTLVKQIAKQVME---DKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF 239
           IGV GMGGVGKTTLV+ +   +++    + F  V+   V+++ D++++Q  +A  L   F
Sbjct: 137 IGVWGMGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRF 196

Query: 240 DLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTI 299
              +        +C+RL   K  L+ILD++W  + L+++GIP      KD K       +
Sbjct: 197 T-REQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSK-------V 248

Query: 300 ILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG 359
           +LTSR   +    M ++ I  +  L ++EA + F   VG  A +   +P+A ++  +C G
Sbjct: 249 VLTSRRLEVCQQMMTNENI-KVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCG 307

Query: 360 LPVALSTVANALKNK-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAK 418
           LP+A+ T+   L+ K ++ VWK  L  L+ S P      +  +  +++LSY+FL+ D  K
Sbjct: 308 LPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPS--IDTEEKIFGTLKLSYDFLQ-DNMK 364

Query: 419 SLFLLCTLFGEGTPIQVASLLRY--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGD 476
           S FL C LF E   I+V+ L+ Y   +GL       E+  N    L++ LK SCLL DGD
Sbjct: 365 SCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDGD 424

Query: 477 AEDEVKMHDVIHVVAVSIAS---EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQE 533
           + D VKMHDV+   A+   S   E     +     L E  +         +S+    ++ 
Sbjct: 425 SCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLER 484

Query: 534 LPERLECPQLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINL 592
           LP  +    ++ L+LL  G+S++ E+ + F +   +L++L LSG+   +L  S  +L +L
Sbjct: 485 LPNNV-IEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSL 543

Query: 593 QTLCLDWC-QLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVI 651
           ++L L  C +L ++ ++  L KL+ L    S I++LP  +  L+ L+ + +SN   L  I
Sbjct: 544 RSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSI 603

Query: 652 APNVISKFSRLEELYMGDSFPQW----DKVEGGSNASLAELKGLSKLTTLEIQVQDAQML 707
               I + S LE L M  S   W    ++ EG   A+L E+  L  L  L I++ D  +L
Sbjct: 604 PAGTILQLSSLEVLDMAGSAYSWGIKGEEREG--QATLDEVTCLPHLQFLAIKLLD--VL 659

Query: 708 PQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDI 767
                F  L +        +   R+ S          + +V+  + N  +  LL+    +
Sbjct: 660 SFSYEFDSLTKRLTKFQFLFSPIRSVSPPGTGEGCLAISDVN--VSNASIGWLLQHVTSL 717

Query: 768 RLEELTGVQNVVHEL--DDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSL 825
            L    G+  +   L       F  +K L +     +    G   ++   +FP LE LSL
Sbjct: 718 DLNYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQL--DLFPNLEELSL 775

Query: 826 YKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSI-ARNLLRLQKVKVASCNK 884
              +NLE+I             LK+++V  C +LK LFS  I A  L  LQ++KV SC +
Sbjct: 776 DN-VNLESIGELNGFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLR 834

Query: 885 LE 886
           LE
Sbjct: 835 LE 836

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 =  219 bits (557), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 219/816 (26%), Positives = 390/816 (47%), Gaps = 130/816 (15%)

Query: 167 LFQDVVEAL-RNDKLNIIGVHGMGGVGKTTLVKQIAKQ-VMEDKVFDKVVMAEVTENPDV 224
           + + V+E L   ++  IIGV+G GGVGKTTL++ I  + + +   +D ++  +++     
Sbjct: 161 MMEQVLEFLSEEEERGIIGVYGPGGVGKTTLMQSINNELITKGHQYDVLIWVQMSREFGE 220

Query: 225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGD 284
             IQ  + + L L++D  ++  +RA ++  R  ++KR L++LD++W+++ LE+ G+P  D
Sbjct: 221 CTIQQAVGARLGLSWDEKETGENRALKI-YRALRQKRFLLLLDDVWEEIDLEKTGVPRPD 279

Query: 285 VDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNS--AK 342
            + K +        ++ T+RS  L  N+M ++    +E L K+ A + F   V      +
Sbjct: 280 RENKCK--------VMFTTRSIAL-CNNMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLE 330

Query: 343 ASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPV-WKDALTQLRNSNPREIHGMDANV 401
           +S+ + LA+ IV KCGGLP+AL T+  A+ +++    W  A +++    P E+ GM+  V
Sbjct: 331 SSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEEEWIHA-SEVLTRFPAEMKGMNY-V 388

Query: 402 CSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY--GKGLFKNVRTLENARNRV 459
            + ++ SY+ LESD  +S FL C LF E   I++  L+ Y  G+G   +   + N   + 
Sbjct: 389 FALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGV-NTIYKG 447

Query: 460 DALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEK-----LMFSIPNVTNLKEEIE 514
             LI +LKA+CLL  GD + +VKMH+V+   A+ +ASE+     L+   P++ +  E  +
Sbjct: 448 YFLIGDLKAACLLETGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPSMGH-TEAPK 506

Query: 515 KIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSL 574
               + A+ IS+    IQ LPE+L CP+L  L+L  N  S  +I   FF     L+VL L
Sbjct: 507 AENWRQALVISLLDNRIQTLPEKLICPKLTTLMLQQN-SSLKKIPTGFFMHMPVLRVLDL 565

Query: 575 SGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQL 634
           S    + +  S+ +L+ L                        LS   + I  LP E+G L
Sbjct: 566 SFTSITEIPLSIKYLVELYH----------------------LSMSGTKISVLPQELGNL 603

Query: 635 AQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNAS----LAELKG 690
            +L+ LDL     L  I  + I   S+LE L +  S+  W+    G + +     A+L+ 
Sbjct: 604 RKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLYYSYAGWELQSFGEDEAEELGFADLEY 663

Query: 691 LSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVST 750
           L  LTTL I V                                           LE + T
Sbjct: 664 LENLTTLGITVL-----------------------------------------SLETLKT 682

Query: 751 LLENYGMKMLLKLTEDIRLEELTGVQ--NVVHELDDGEGFPRLKHLWVERCSEILHIVGS 808
           L E +G   L K  + + +EE   +   N+    + G    RL    ++ C ++ ++V +
Sbjct: 683 LFE-FG--ALHKHIQHLHVEECNELLYFNLPSLTNHGRNLRRLS---IKSCHDLEYLV-T 735

Query: 809 VGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIA 868
                    P LE L+L+ L NL  +  + + +D    N++ I +  C+KLK++   S  
Sbjct: 736 PADFENDWLPSLEVLTLHSLHNLTRVWGNSVSQD-CLRNIRCINISHCNKLKNV---SWV 791

Query: 869 RNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSK 928
           + L +L+ +++  C ++E                 E+I++ + +P V  P+   +LK  +
Sbjct: 792 QKLPKLEVIELFDCREIE-----------------ELISEHE-SPSVEDPTLFPSLKTLR 833

Query: 929 CQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRL 964
            + + E+       +  +R +F +++ L++    R+
Sbjct: 834 TRDLPEL-----NSILPSRFSFQKVETLVITNCPRV 864

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

 Score =  189 bits (481), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 168/577 (29%), Positives = 284/577 (49%), Gaps = 39/577 (6%)

Query: 65  QQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLI-SRYKLSKQAA 123
           QQR E  +   D +N++D    + ++ S ++     +K C  G C   + S YK  K+  
Sbjct: 64  QQRLEAVQVWLDRVNSIDIECKDLLSVSPVE----LQKLCLCGLCSKYVCSSYKYGKRVF 119

Query: 124 KAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNII 183
              E    L  +GNF  VS +P P S   ++ +  +    + ++ +     L  D + I+
Sbjct: 120 LLLEEVTKLKSEGNFDEVS-QPPPRS--EVEERPTQPTIGQEEMLKKAWNRLMEDGVGIM 176

Query: 184 GVHGMGGVGKTTLVKQIAKQVMEDK-VFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL- 241
           G+HGMGGVGKTTL K+I  +  E    FD V+   V++   + K+Q+ +A  L L  DL 
Sbjct: 177 GLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLW 236

Query: 242 -NDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTII 300
            N ++  +A  +  R+ K KR +++LD+IW+K+ LE IGIP+          ++ +  + 
Sbjct: 237 KNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPY--------PSEVNKCKVA 287

Query: 301 LTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCG 358
            T+R + +    M   K   ++ L  E+A + F+  VG++   S      LA E+  KC 
Sbjct: 288 FTTRDQKV-CGQMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCR 346

Query: 359 GLPVALSTVANALKNKKL-PVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEA 417
           GLP+ALS +   + +K +   W+ A+  L  S   E   M   +   ++ SY+ LE +  
Sbjct: 347 GLPLALSCIGETMASKTMVQEWEHAIDVLTRS-AAEFSDMQNKILPILKYSYDSLEDEHI 405

Query: 418 KSLFLLCTLFGEGTPIQVASLLR--YGKGLFKNVRTLENARNRVDALIDNLKASCLLLD- 474
           KS FL C LF E   I   +L+     +G     + ++ ARN+   ++  L  + LL + 
Sbjct: 406 KSCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTND 465

Query: 475 -GDAEDEVKMHDVIHVVAVSIAS----EKLMFSIPNVTNLKEEIEKIIQKGAI-AISIPY 528
            G  +  V MHDV+  +A+ IAS    +K  + +     L  EI K+   GA+  +S+  
Sbjct: 466 RGFVKWHVVMHDVVREMALWIASDFGKQKENYVVRARVGL-HEIPKVKDWGAVRRMSLMM 524

Query: 529 GDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLS-GIHFSSLSSSLG 587
            +I+E+    +C +L  L L +N      +S  F    + L VL LS    F+ L   + 
Sbjct: 525 NEIEEITCESKCSELTTLFLQSN--QLKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQIS 582

Query: 588 HLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSD 623
            L++LQ L L W ++E +   + +LKKL  L+  +++
Sbjct: 583 GLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNLCFTE 619

Probable 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 =  186 bits (471), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 174/611 (28%), Positives = 299/611 (48%), Gaps = 35/611 (5%)

Query: 29  ISYVFKYQSYIAELKVQVKELEYKRERVG--IPVREATQQRDEIYKDVADWLNNVDEFIS 86
           + Y+ +    +  +K  ++ L+ KR+ V   + + E T++R+ + + V  WL NV   + 
Sbjct: 26  VGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVST-VE 83

Query: 87  EGVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHRP 145
               + +  ++   ++ C  GFC  N+   Y   K+     +   SL  +G+F +V+   
Sbjct: 84  NKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLAT 143

Query: 146 APESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM 205
                E M  +       +  + + V   L  D   I+G++GMGGVGKTTL+ +I  +  
Sbjct: 144 PIARIEEMPIQP--TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFS 201

Query: 206 ED-KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLND--SKPHRAKQLCQRLTKEKRV 262
           E    F  V+   V+++PD+ +IQ  +   LDL  +  D  ++  RA  +   L K+K V
Sbjct: 202 EKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFV 261

Query: 263 LIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIE 322
           L +LD+IW+K+ LE +G+P+       R+   +   ++ T+RS+  +   M       + 
Sbjct: 262 L-LLDDIWEKVNLEVLGVPY-----PSRQNGCK---VVFTTRSRD-VCGRMRVDDPMEVS 311

Query: 323 VLSKEEALQFFEKIVG-NSAKASAFQP-LADEIVGKCGGLPVALSTVANALKNKKL-PVW 379
            L   EA + F+  VG N+ K     P LA ++ GKC GLP+AL+ +   +  K++   W
Sbjct: 312 CLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEW 371

Query: 380 KDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLL 439
           ++A+  L +S   E  GM+  +   ++ SY+ L  ++ K  FL C+LF E   ++   L+
Sbjct: 372 RNAIDVL-SSYAAEFPGME-QILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLI 429

Query: 440 RYG--KGLFKNVRTLENARNRVDALIDNLKASCLLL-DGDAEDEVKMHDVIHVVAVSIAS 496
            Y   +G      + E A ++   +I  L  +CLLL +   +++VKMHDV+  +A+ IAS
Sbjct: 430 DYWICEGFIDENESRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIAS 489

Query: 497 ---EKLMFSIPNVTNLKEEIEKIIQKGAI-AISIPYGDIQELPERLECPQLKLLLLLANG 552
              E     I  V     E+ K+    ++  +S+   +I+ L    EC +L  L L  N 
Sbjct: 490 DLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKN- 548

Query: 553 DSYLEISHLFFEGTEDLKVLSLSG-IHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQ 610
           DS L IS  FF     L VL LSG      L + +  L++L+ L L W  ++ +   + +
Sbjct: 549 DSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQE 608

Query: 611 LKKLEILSFRY 621
           LKKL  L   Y
Sbjct: 609 LKKLRYLRLDY 619

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 =  185 bits (470), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 176/622 (28%), Positives = 301/622 (48%), Gaps = 50/622 (8%)

Query: 30  SYVFKYQSYIAELKVQVKELEYKRERVGIPV-REAT--QQRDEIYKDVADWLNNVDEFIS 86
           SY+   +  +  L+ ++++L   +  V   V RE +  QQR E  +   D +N++D    
Sbjct: 27  SYIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECK 86

Query: 87  EGVAKSIIDDEDRAKKSCFKGFCPNLI-SRYKLSKQAAKAAEAAASLVGKGNFSSVSHRP 145
           + ++ S ++     +K C  G C   + S YK  K+     E    L  +GNF  VS +P
Sbjct: 87  DLLSVSPVE----LQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVS-QP 141

Query: 146 APESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM 205
            P S   ++ +  +    + ++ +     L  D + I+G+HGMGGVGKTTL K+I  +  
Sbjct: 142 PPRS--EVEERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFA 199

Query: 206 E-DKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL--NDSKPHRAKQLCQRLTKEKRV 262
           E    FD V+   V++   + K+Q+ +A  L L  DL  N ++  +A  +  R+ K KR 
Sbjct: 200 EIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRF 258

Query: 263 LIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIE 322
           +++LD+IW+K+ LE IGIP+          ++ +  +  T+RS+ +   +M   K   + 
Sbjct: 259 VLMLDDIWEKVDLEAIGIPY--------PSEVNKCKVAFTTRSREV-CGEMGDHKPMQVN 309

Query: 323 VLSKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKKL-PVW 379
            L  E+A + F+  VG++  +S      LA E+  KC GLP+AL+ +   + +K +   W
Sbjct: 310 CLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEW 369

Query: 380 KDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLL 439
           + A+  L  S   E  GM+  +   ++ SY+ L  +  KS FL C LF E   I   +L+
Sbjct: 370 EYAIDVLTRS-AAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLI 428

Query: 440 R--YGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAE----------DEVKMHDVI 487
                +G     + ++ ARN+  A++  L  + LL     E              MHDV+
Sbjct: 429 DKLICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCVMHDVV 488

Query: 488 HVVAVSIAS----EKLMFSIPNVTNLKEEIEKIIQKGAI-AISIPYGDIQELPERLECPQ 542
             +A+ IAS    +K  F +     L  EI ++   GA+  +S+   +I+E+    +C +
Sbjct: 489 REMALWIASDFGKQKENFVVQASAGL-HEIPEVKDWGAVRRMSLMRNEIEEITCESKCSE 547

Query: 543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLS-GIHFSSLSSSLGHLINLQTLCLDWCQ 601
           L  L L +N      +S  F    + L VL LS    F+ L   +  L++LQ L L + +
Sbjct: 548 LTTLFLQSN--QLKNLSGEFIRYMQKLVVLDLSDNRDFNELPEQISGLVSLQYLDLSFTR 605

Query: 602 LEDV-AAIGQLKKLEILSFRYS 622
           +E +   + +LKKL  L   Y+
Sbjct: 606 IEQLPVGLKELKKLTFLDLAYT 627

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 =  185 bits (470), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 161/539 (29%), Positives = 263/539 (48%), Gaps = 34/539 (6%)

Query: 101 KKSCFKGFCPNLI-SRYKLSKQAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFE 159
           +K C  G C   + S YK  K+     E    L  +GNF  VS +P P S   ++ +  +
Sbjct: 95  QKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVS-QPPPRS--EVEERPTQ 151

Query: 160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME-DKVFDKVVMAEV 218
               +  + +     L  D + I+G+HGMGGVGKTTL K+I  +  E    FD V+   V
Sbjct: 152 PTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVV 211

Query: 219 TENPDVQKIQDKLASDLDLNFDL--NDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE 276
           ++   + K+Q+ +A  L L  DL  N ++  +A  +  R+ K KR +++LD+IW+K+ LE
Sbjct: 212 SKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLE 270

Query: 277 EIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKI 336
            IGIP+          ++ +  +  T+RS+ +   +M   K   +  L  E+A + F+  
Sbjct: 271 AIGIPY--------PSEVNKCKVAFTTRSREV-CGEMGDHKPMQVNCLEPEDAWELFKNK 321

Query: 337 VGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKKL-PVWKDALTQLRNSNPRE 393
           VG++  +S      LA E+  KC GLP+AL+ +   + +K +   W+ A+  + N++  E
Sbjct: 322 VGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAI-HVFNTSAAE 380

Query: 394 IHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYG--KGLFKNVRT 451
              M   +   ++ SY+ L  +  KS FL C LF E   I    L+ Y   +G     + 
Sbjct: 381 FSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQV 440

Query: 452 LENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIAS----EKLMFSIPNVT 507
           ++ ARN+  A++  L  + LL        V MHDV+  +A+ IAS    +K  F +    
Sbjct: 441 IKRARNKGYAMLGTLTRANLLTKVGTYYCV-MHDVVREMALWIASDFGKQKENFVVQAGV 499

Query: 508 NLKEEIEKIIQKGAI-AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGT 566
            L  EI K+   GA+  +S+   DI+E+    +C +L  L L +N      +   F    
Sbjct: 500 GL-HEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSN--KLKNLPGAFIRYM 556

Query: 567 EDLKVLSLS-GIHFSSLSSSLGHLINLQTLCLDWCQLEDVA-AIGQLKKLEILSFRYSD 623
           + L VL LS    F+ L   +  L++LQ L L    +E +   + +LKKL  L   Y+D
Sbjct: 557 QKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLTFLDLTYTD 615

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 =  181 bits (460), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 174/632 (27%), Positives = 294/632 (46%), Gaps = 37/632 (5%)

Query: 27  RQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFIS 86
           R   Y+   +  +  L+  ++++E +RE +   +    ++  +    V  W++ V+  + 
Sbjct: 24  RNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVP 83

Query: 87  EGVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHRP 145
             V + +     + ++ C  GFC  NL+S Y+  K+  K  E    L  +G+F+ V+ R 
Sbjct: 84  R-VNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERV 142

Query: 146 APESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM 205
                E    +   A D    + +     L  D++ I+G+HGMGGVGKTTL+  I  +  
Sbjct: 143 DAARVEERPTRPMVAMDP---MLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFS 199

Query: 206 E-DKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL-CQRLTKEKRVL 263
                FD V+   V++   +Q+IQD++   L  + +    K    K      + K KR +
Sbjct: 200 RVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFV 259

Query: 264 IILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEV 323
           ++LD+IW K+ L E+G+PF   +   +        I+ T+R K +    M       +  
Sbjct: 260 LLLDDIWSKVDLTEVGVPFPSRENGCK--------IVFTTRLKEI-CGRMGVDSDMEVRC 310

Query: 324 LSKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWK 380
           L+ ++A   F K VG     S      +A  +  KC GLP+AL+ +   +  K+ +  W+
Sbjct: 311 LAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWR 370

Query: 381 DALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLR 440
            A+  L  S+  E  GM+  +   ++ SY+ L+S++ K  F  C LF E   I+   L+ 
Sbjct: 371 SAIDVL-TSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVD 429

Query: 441 Y--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIAS-- 496
           Y  G+G     R    A N+   +I  L  SCLL++ + E  VKMHDV+  +A+ IAS  
Sbjct: 430 YWIGEGFID--RNKGKAENQGYEIIGILVRSCLLMEENQET-VKMHDVVREMALWIASDF 486

Query: 497 ----EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANG 552
               E  +      +    EIEK   K A  +S+ + +I+ + +  E PQL  LLL  N 
Sbjct: 487 GKQKENFIVQAGLQSRNIPEIEK--WKVARRVSLMFNNIESIRDAPESPQLITLLLRKNF 544

Query: 553 DSYLEISHLFFEGTEDLKVLSLS-GIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQ 610
             +  IS  FF     L VL LS       L + +   ++LQ L L   ++    A + +
Sbjct: 545 LGH--ISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVE 602

Query: 611 LKKLEILSFRYSDIKQLPLEIGQLAQLQLLDL 642
           L+KL  L+  Y+ + +    I  L  L++L L
Sbjct: 603 LRKLLYLNLEYTRMVESICGISGLTSLKVLRL 634

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  174 bits (440), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 178/695 (25%), Positives = 317/695 (45%), Gaps = 62/695 (8%)

Query: 28  QISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISE 87
           ++SY    +  +  L+  ++EL+ KR+ +   ++    +  +   ++  WLN V E I  
Sbjct: 23  KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRV-ETIES 81

Query: 88  GVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHRPA 146
            V   +       ++ C  GFC  +L + Y+  K           L  +  F  +S + +
Sbjct: 82  RVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKL-ERRVFEVISDQAS 140

Query: 147 PESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME 206
               E  Q +       +  +  +    L  D + I+G++GMGGVGKTTL+ QI  +  +
Sbjct: 141 TSEVEEQQLQ--PTIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSK 198

Query: 207 DKV-FDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL-CQRLTKEKRVLI 264
               FD V+   V++  +V+ I D++A  + ++ +  D+K    K +      ++ R ++
Sbjct: 199 YMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFVL 258

Query: 265 ILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVL 324
            LD+IW+K+ L EIG+PF  +  K +        ++ T+RS  + T+ M  +K   ++ L
Sbjct: 259 FLDDIWEKVNLVEIGVPFPTIKNKCK--------VVFTTRSLDVCTS-MGVEKPMEVQCL 309

Query: 325 SKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWKD 381
           +  +A   F+K VG     S    + L+  +  KC GLP+AL+ V+  +  K+ +  W+ 
Sbjct: 310 ADNDAYDLFQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRH 369

Query: 382 ALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY 441
           A+  L NS   +  GMD  +   ++ SY+ L+ ++ K   L C LF E   I+  +L+ Y
Sbjct: 370 AIYVL-NSYAAKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEY 428

Query: 442 G--KGLFKNVRTLENARNRVDALIDNLKASCLLLDG---DAEDEVKMHDVIHVVAVSIAS 496
              + +      ++ A N+   +I +L  + LL++    D  + V +HDV+  +A+ IAS
Sbjct: 429 WICEEIIDGSEGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIAS 488

Query: 497 ----EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANG 552
               +   F +     L+E ++         +S+   +I  L  RL+C +L  LLL +  
Sbjct: 489 DLGKQNEAFIVRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQS-- 546

Query: 553 DSYLE-ISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQL 611
            ++LE IS  FF     L VL LSG ++      L  L N                I +L
Sbjct: 547 -THLEKISSEFFNSMPKLAVLDLSGNYY------LSELPN---------------GISEL 584

Query: 612 KKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF 671
             L+ L+   + I+ LP  + +L +L  L L   S L  +    IS    L+ L +  S 
Sbjct: 585 VSLQYLNLSSTGIRHLPKGLQELKKLIHLYLERTSQLGSMVG--ISCLHNLKVLKLSGSS 642

Query: 672 PQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQM 706
             WD        ++ EL+ L  L  L   + D  +
Sbjct: 643 YAWDL------DTVKELEALEHLEVLTTTIDDCTL 671

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  171 bits (433), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 232/885 (26%), Positives = 386/885 (43%), Gaps = 129/885 (14%)

Query: 30  SYVFKYQSYIAELKVQVKELEYKRE----RVGIPVREATQQRDEIYKDVADWLNNVDEFI 85
           +Y+   +S +  L+  ++EL+  R+    RV I   +  Q+       V  WL+ V   I
Sbjct: 26  NYIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQR----LALVNGWLSRVQ--I 79

Query: 86  SEGVAKSIIDDED-RAKKSCFKGFCP-NLISRYKLSKQAAKAAEAAASLVGKGNFSSVSH 143
            E   K +++       + C  G+C  + IS Y    +  K  E    L+ K NF  V+ 
Sbjct: 80  VESEFKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQ 139

Query: 144 RPAPES-TEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAK 202
           +  P++  +H+Q       D+ + +     E+L +D++  +G++GMGG+GKTTL++ +  
Sbjct: 140 KIIPKAEKKHIQTT--VGLDTMVGI---AWESLIDDEIRTLGLYGMGGIGKTTLLESLNN 194

Query: 203 QVME-DKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKR 261
           + +E +  FD V+   V+++  ++ IQD++   L  + +       +   L     K K+
Sbjct: 195 KFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETESKKASLINNNLKRKK 254

Query: 262 VLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLI 321
            +++LD++W ++ L +IG+P    +   +        I+ T+RSK +  + M + K   +
Sbjct: 255 FVLLLDDLWSEVDLIKIGVPPPSRENGSK--------IVFTTRSKEVCKH-MKADKQIKV 305

Query: 322 EVLSKEEALQFFEKIVGNSAKASA--FQPLADEIVGKCGGLPVALSTVANALKNKK-LPV 378
           + LS +EA + F   VG+    S      LA  +  KC GLP+AL+ +  A+  K+ +  
Sbjct: 306 DCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQE 365

Query: 379 WKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASL 438
           W+ A+  L NS   +  GM+  +   ++ SY+ L++ E K  FL C+LF E   I+   L
Sbjct: 366 WRHAINVL-NSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKL 424

Query: 439 LRYG--KGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIAS 496
           + Y   +G     R  +   N+   +I  L  + LL++ +  D+VKMHDVI  +A+ I S
Sbjct: 425 IEYWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLLIECELTDKVKMHDVIREMALWINS 484

Query: 497 EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLE--------------CPQ 542
           +          N +E I   ++ GA    IP     E+  ++               CP 
Sbjct: 485 D--------FGNQQETI--CVKSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPN 534

Query: 543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQL 602
           L  LLL  N    ++IS  FF     L VL LS                      +W  +
Sbjct: 535 LSTLLLPYN--KLVDISVGFFLFMPKLVVLDLST---------------------NWSLI 571

Query: 603 EDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS---SLVVIAPNVISKF 659
           E    I  L  L+ L+   + IK LP+ + +L +L  L+L   +   SLV IA    +  
Sbjct: 572 ELPEEISNLGSLQYLNLSLTGIKSLPVGLKKLRKLIYLNLEFTNVLESLVGIA----TTL 627

Query: 660 SRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRY 719
             L+ L +  S    D +       + EL+ L  L  L   ++DA +L +      + R 
Sbjct: 628 PNLQVLKLFYSLFCVDDI------IMEELQRLKHLKILTATIEDAMILER---VQGVDRL 678

Query: 720 RICIGEAWGIWRANSETSRL----VQLHGLEN---VSTLLENYGMKMLLKLTEDIRLEEL 772
              I    G+   N    R+    V L GL+    VS  +    +  L K   D R    
Sbjct: 679 ASSIR---GLCLRNMSAPRVILNSVALGGLQQLGIVSCNISEIEIDWLSKERRDHRSTSS 735

Query: 773 TGVQNVVHELDDGEGFPR----------LKHLWVERCSEILHIVG-----SVGRVHRKV- 816
            G + +      G   PR          LK + V+    I  I+      S+ +VHR + 
Sbjct: 736 PGFKQLASITVIGLVGPRDLSWLLFAQNLKDIQVQYSPTIEEIINKQKGMSITKVHRDIV 795

Query: 817 --FPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKL 859
             F  LESL LY+L  L  IC +     Q   NL+   V  C KL
Sbjct: 796 VPFGKLESLHLYQLAELTEICWNY----QTLPNLRESYVNYCPKL 836

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	1209
359488027	1520	PREDICTED: disease resistance protein At	0.892	0.709	0.406	0.0
255563252	1603	Disease resistance protein RPS5, putativ	0.908	0.684	0.416	0.0
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.849	0.606	0.400	0.0
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.879	0.808	0.4	0.0
359488103	1530	PREDICTED: disease resistance protein At	0.850	0.671	0.392	0.0
359488108	1436	PREDICTED: disease resistance protein At	0.847	0.713	0.396	0.0
359488095	1347	PREDICTED: probable disease resistance p	0.849	0.762	0.390	0.0
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.875	0.594	0.383	0.0
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.872	0.787	0.403	0.0
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.904	0.816	0.378	0.0

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

 Score =  750 bits (1937), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 493/1212 (40%), Positives = 687/1212 (56%), Gaps = 133/1212 (10%)

Query: 13   IVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYK 72
            I  + A+ L  PI R   Y+F Y+S I +L+ QV++L   R R+   V EA +  DEI  
Sbjct: 8    IAAKVAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIRNGDEIEA 67

Query: 73   DVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASL 132
            DV  WL  V  F+ E  A    + E +A +SCF G CPNL S+Y+LS++A K A   A +
Sbjct: 68   DVDKWLLRVSGFMEE--AGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRARVVAEI 125

Query: 133  VGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVG 192
             G G F  VS+R           K  EA +SRM    +++EALR+  +NIIGV GM GVG
Sbjct: 126  QGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGVWGMAGVG 185

Query: 193  KTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL 252
            KTTL+KQ+AKQ  E+K+FDKVVMA ++  P+++KIQ +LA  L L F+  +S+  RA +L
Sbjct: 186  KTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFE-EESEMGRAARL 244

Query: 253  CQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTND 312
            C+RL K K++LIILD+IW +L LE++GIPFGD D K  K       ++LTSR+KH+L+N+
Sbjct: 245  CERLKKVKKILIILDDIWTELDLEKVGIPFGD-DHKGCK-------MVLTSRNKHILSNE 296

Query: 313  MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK 372
            M +QK F +E L +EEAL  F+K+ G+S +    Q +A ++  +C GLP+A+ TVA ALK
Sbjct: 297  MGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALK 356

Query: 373  NKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTP 432
            NK L +W+DAL QL+ S P  I GMDA V S++ELSY  LE DE KSLFLLC L      
Sbjct: 357  NKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLM--SNK 414

Query: 433  IQVASLLRYGKG--LFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVV 490
            I +  LL+YG G  LF+   TLE A+NR+D L+D+LKAS LLLD      V+MHDV+  V
Sbjct: 415  IYIDDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDV 474

Query: 491  AVSIASEKLMFSIPNVTNLKE----EIEKIIQ-KGAIAISIPYGDIQELPERLECPQLKL 545
            A++I S+     +  V +L+E    E  K+ + +    +S+ Y DI ELP  L CP+L+L
Sbjct: 475  AIAIVSK-----VHRVFSLREDELVEWPKMDELQTCTKMSLAYNDICELPIELVCPELEL 529

Query: 546  LLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV 605
             L     D +L+I   FFE  + LKVL LS +HF+SL SSL  L NL+TL L+WC+L D+
Sbjct: 530  FLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDI 589

Query: 606  AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEEL 665
            + I +LKKLE  SF  S+I++LP EI QL  L+L DL +CS L  I PNVIS  S+LE L
Sbjct: 590  SIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENL 649

Query: 666  YMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGE 725
             M +SF  W+ VEG SNAS+AE K L  LTTL+IQ+ DA++L  D++F +L RYRI IG+
Sbjct: 650  CMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFEKLIRYRIFIGD 708

Query: 726  AWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDG 785
             W  W  N  T++ ++L+ L+    L +  G+ +LLK  +D+ L EL+G  NV  +LD  
Sbjct: 709  VWS-WDKNCPTTKTLKLNKLDTSLRLAD--GISLLLKGAKDLHLRELSGAANVFPKLDR- 764

Query: 786  EGFPRLKHLWVERCSEILHIVGSVGRVHRK-VFPLLESLSLYKLINLEAICHSQLREDQF 844
            EGF +LK L VER  E+ HI+ S+  +     FP+LESL L +LINL+ +CH QL     
Sbjct: 765  EGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQEVCHGQLLVGS- 823

Query: 845  FSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNE 904
            FS L+I++VE CD LK LFS S+AR L RL+K+++  C  +   V   +E          
Sbjct: 824  FSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKE---------- 873

Query: 905  IIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRL 964
               D D A                                 + I F+EL+ L L +L +L
Sbjct: 874  ---DGDDAV--------------------------------DAILFAELRYLTLQHLPKL 898

Query: 965  TSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPK-PCKVQVTEKEEGELHHWEGN- 1022
             +FCLE  T+  PS  +    R P       GI S  +   +  V  + EG    W G  
Sbjct: 899  RNFCLEGKTM--PSTTK----RSPTTNVRFNGICSEGELDNQTSVFNQLEG----WHGQL 948

Query: 1023 -----NLNS---------------------------IMQKY-------YKEMIGFRDIWY 1043
                 NL S                           I++ Y       + E      +  
Sbjct: 949  LLSFCNLQSLKIKNCASLLKVLPPSLLQNLQNLEVLIVENYDIPVAVLFNEKAALPSLEL 1008

Query: 1044 LQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNC 1103
            L +S    +K+IWH Q LP   F  L  + V  C  + +  P+++L+ L +L+ L+  +C
Sbjct: 1009 LNISGLDNVKKIWHNQ-LPQDSFTKLKDVKVASCGQLLNIFPSSMLKRLQSLQFLKAVDC 1067

Query: 1104 DSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTG-NIIELPELRYLTIE 1162
             SLEEV  +E +N  KE +     +LS L L  LPK+K+  N     I+    L+ + I+
Sbjct: 1068 SSLEEVFDMEGINV-KEAVA--VTQLSKLILQFLPKVKQIWNKEPRGILTFQNLKSVMID 1124

Query: 1163 NCPDMETFISNS 1174
             C  ++     S
Sbjct: 1125 QCQSLKNLFPAS 1136

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 =  736 bits (1900), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 508/1220 (41%), Positives = 707/1220 (57%), Gaps = 122/1220 (10%)

Query: 1    MAADLVSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPV 60
            MA D++      IV    +  F PI R + Y F Y+S +   K   ++L   RER+   V
Sbjct: 1    MALDVIL----AIVPTIFEYTFVPIKRHLGYAFNYKSQVENFKNWTEKLVSARERLQHSV 56

Query: 61   REATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSK 120
              A +  +EI  DV  W+  VD+ I E   K I DD++ A K CF G CPN+ +RY L K
Sbjct: 57   DYAVRGGEEIENDVKRWIIGVDKAIEEA-DKLIKDDQEEATKRCFIGLCPNVKARYNLCK 115

Query: 121  QAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKL 180
            +  K ++  A L  KG F  VS+R   +       K+  A  SRM + ++V++AL +  +
Sbjct: 116  KMEKYSKVIAELQNKGRFDPVSYRVQLQQIVTSSVKNRGALHSRMSVLKEVMDALADPNV 175

Query: 181  NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD 240
             ++GV GMGGVGKTTL K++ +QV+E+K+FD VVMA V+E PD++KIQ  +A  L L FD
Sbjct: 176  LMVGVCGMGGVGKTTLAKEVHQQVIEEKLFDIVVMATVSEKPDIRKIQGNIADVLGLKFD 235

Query: 241  LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTII 300
              +++  RA +L QRL  EK++L+ILDNIW +L LEE+GIP G VD K  K       I+
Sbjct: 236  -EETETGRAYRLRQRLMTEKKILVILDNIWAQLELEEVGIPCG-VDHKGCK-------IL 286

Query: 301  LTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL 360
            LTSRS+ LL+ DM  QK+F +EVL +EEAL  FE +VG+  K   FQ  A E+  KC GL
Sbjct: 287  LTSRSRDLLSCDMGVQKVFRLEVLQEEEALSLFEMMVGD-VKGGEFQSAASEVTKKCAGL 345

Query: 361  PVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSL 420
            PV + T+A ALKNK L VWKDA+ QL   +  EI      V S++ELSYN L   E KSL
Sbjct: 346  PVLIVTIARALKNKDLYVWKDAVKQLSRCDNEEIQ---EKVYSALELSYNHLIGAEVKSL 402

Query: 421  FLLCTLFGEGTPIQVASLLRY--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAE 478
            FLLC L G+ + I +  LL Y  G GLFK + TL +ARNRV  LI +LKA+CLLLD D +
Sbjct: 403  FLLCGLLGK-SDIAILDLLMYSTGLGLFKGIDTLGDARNRVHKLISDLKAACLLLDSDIK 461

Query: 479  DEVKMHDVIHVVAVSIASE-KLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPER 537
              VK+HDV+  VA+SIAS  + +F++ N   LKE   K + K    IS+PY DI  LPE 
Sbjct: 462  GRVKIHDVVRDVAISIASRMQHLFTVRNGALLKEWPNKDVCKSCTRISLPYNDIHGLPEV 521

Query: 538  LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL 597
            LECP+L+L LL    D  L++  L FE T++L+VL+ +G+HFSSL  SLG L NL TLCL
Sbjct: 522  LECPELELFLLFTQ-DISLKVPDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTLCL 580

Query: 598  DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVIS 657
            DWC L DVA IG+L  L ILSF++SDI +LP EI QL +L+ LDLS+C  L VI   +IS
Sbjct: 581  DWCALRDVAIIGELTGLTILSFKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKIIS 640

Query: 658  KFSRLEELYMGDSFPQWD--KVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVE 715
            + ++LEELYM +SF  WD   +    NASLAEL+ L  LTTLEI V DA++LP+DL F +
Sbjct: 641  ELTQLEELYMNNSFDLWDVQGINNQRNASLAELECLPYLTTLEICVLDAKILPKDLFFRK 700

Query: 716  LPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGV 775
            L R+RI IG+ W     +  TSR ++L    N S++   +G+ +LL++TED+ L E+ G+
Sbjct: 701  LERFRIFIGDVWS-GTGDYGTSRTLKLK--LNTSSIHLEHGLSILLEVTEDLYLAEVKGI 757

Query: 776  QNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAIC 835
            ++V+++LD  +GF +LKHL V+   EI +I+    R     FP+LESL L  L++LE IC
Sbjct: 758  KSVLYDLD-SQGFTQLKHLDVQNDPEIQYIIDPNRRSPCNAFPILESLYLDNLMSLEKIC 816

Query: 836  HSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREK 895
              +L    F S L+ + V  CD+LK+LFSFS+ R LL+LQ+                   
Sbjct: 817  CGKLTTGSF-SKLRSLTVVKCDRLKNLFSFSMMRCLLQLQQ------------------- 856

Query: 896  PTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKEN---RIAFSE 952
                                        +KV  C  +EEIV   G E  +N    +  ++
Sbjct: 857  ----------------------------MKVVDCANLEEIVA-CGSEDTDNDYEAVKLTQ 887

Query: 953  LKVLILNYLSRLTSFCLENYTLEFPSLERVSMI--RCPNMKTFSQGILSI-PKPCKVQVT 1009
            L  L L  L    SFC         S ++VS I  R     T   G+  I PK       
Sbjct: 888  LCSLTLKRLPMFKSFC---------SKKKVSPISLRVQKQLTTDTGLKEIAPK------- 931

Query: 1010 EKEEGELHHWEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNL 1069
                GEL    G+ L       + EM  F ++  L+LS     ++I   Q   +S  +NL
Sbjct: 932  ----GEL----GDPL-----PLFNEMFCFPNLENLELSSIA-CEKICDDQLSAIS--SNL 975

Query: 1070 ARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKL 1129
              L+V+ C N+     ++L++ L  L+RLEV +C S+E ++  EEL  ++ +   +FP+L
Sbjct: 976  MSLIVERCWNLKYLFTSSLVKNLLLLKRLEVFDCMSVEGIIVAEELVEEERNRKKLFPEL 1035

Query: 1130 SNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISNSTSVLHMTADNKEAQK 1189
              L+L +LP + RFC+  G  +E   LR L IENCP +  F+S S S   +  +++EA+ 
Sbjct: 1036 DFLKLKNLPHITRFCD--GYPVEFSSLRKLLIENCPALNMFVSKSPSADMI--ESREAKG 1091

Query: 1190 LKSEENLLVANQIQHLFDKK 1209
            + SE+N     + Q LF++K
Sbjct: 1092 MNSEKN--HHTETQPLFNEK 1109

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  726 bits (1875), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/1186 (40%), Positives = 664/1186 (55%), Gaps = 159/1186 (13%)

Query: 13   IVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYK 72
            +  + ++ L +P +RQ+ Y+F Y++ I +L  QV++L   R R+   V EA      I  
Sbjct: 8    VAAKVSEYLVDPAIRQLGYLFNYRANIEDLSQQVEKLRDARARLQHSVDEAIGNGHIIED 67

Query: 73   DVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASL 132
            DV  W+   D FI    A   ++DE  A+KSCF G CPNL SRY+LS++A K A  A  +
Sbjct: 68   DVRKWMKRADGFIQN--ACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAGVAVEI 125

Query: 133  VGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVG 192
             G G F  VS+R AP   + ++    EA +SRM    +V+EALR+  +N IGV GMGGVG
Sbjct: 126  HGAGQFERVSYR-AP--LQEIRTAPSEALESRMLTLNEVMEALRDANINRIGVWGMGGVG 182

Query: 193  KTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL 252
            K+TLVKQ+A+Q  ++K+F KVVM  V + PD + IQ ++A  L + F+   S+  RA +L
Sbjct: 183  KSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFE-EVSEQGRADRL 241

Query: 253  CQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTND 312
             QR+ +E  +LIILD++W +L LE++GIP  D D K  K       ++LTSR+K +L+N+
Sbjct: 242  HQRIKQENTILIILDDLWAELELEKVGIPSPD-DHKGCK-------LVLTSRNKQVLSNE 293

Query: 313  MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK 372
            M++QK F ++ L ++E    F+   G+S +    QP+A ++  +C GLP+A+ TVA ALK
Sbjct: 294  MSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALK 353

Query: 373  NKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTP 432
            NK + +WKDAL QL +     I GM+  V SS++LSY  LE DE KSLFLLC LF     
Sbjct: 354  NKNVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLFLLCGLFS--NY 411

Query: 433  IQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVV 490
            I +  LL+YG GL  F+   TLE A+NR+D L+DNLK+S LLL+      V+MHDV+  V
Sbjct: 412  IYIRDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETGHNAVVRMHDVVRSV 471

Query: 491  AVSIAS-EKLMFSIPNVTNLKEEIEKI--IQKGAIAISIPYGDIQELPERLECPQLKLLL 547
            A+ I+S +  +F++   T   E+  +I  +QK  I ++    DI ELPE L CP+LKL +
Sbjct: 472  ALDISSKDHHVFTLQQTTGRVEKWPRIDELQK-VIWVNQDECDIHELPEGLVCPKLKLFI 530

Query: 548  LLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAA 607
                 +S ++I + FFEG + L+VL  + +H  SL SSL  L NLQTL L  C+L D+  
Sbjct: 531  CCLKTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGI 590

Query: 608  IGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 667
            I +LKKLEILS   SDI+QLP EI QL  L+LLDLS+ S++ VI   VIS  S+LE+L M
Sbjct: 591  ITELKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLSQLEDLCM 650

Query: 668  GDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAW 727
             +SF QW+  EG SNA LAELK LS LT+L+IQ+ DA++LP+D+VF  L RYRI +G+ W
Sbjct: 651  ENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDVVFENLVRYRIFVGDVW 709

Query: 728  GIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEG 787
             IW  N +T+R ++L   +    L++  G+  LLK+TED+ L EL G  NV+ +L DGEG
Sbjct: 710  -IWEENYKTNRTLKLKKFDTSLHLVD--GISKLLKITEDLHLRELCGGTNVLSKL-DGEG 765

Query: 788  FPRLKHLWVERCSEILHIVGSVGRVH-RKVFPLLESLSLYKLINLEAICHSQL----RED 842
            F +LKHL VE   EI +IV S+        FP++E+LSL +LINL+ +CH Q        
Sbjct: 766  FFKLKHLNVESSPEIQYIVNSLDLTSPHGAFPVMETLSLNQLINLQEVCHGQFPVESSRK 825

Query: 843  QFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGF 902
            Q F  L+ +EVE CD LK LFS S+AR L +L+++KV  C  +   V  +R+        
Sbjct: 826  QSFGCLRKVEVEDCDGLKFLFSLSVARGLSQLEEIKVTRCKSMVEMVSQERK-------- 877

Query: 903  NEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLS 962
             EI  D D  P                                    F EL+ L L  L 
Sbjct: 878  -EIREDADNVP-----------------------------------LFPELRHLTLEDLP 901

Query: 963  RLTSFCLENYTLEFPSLER-VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEG 1021
            +L++FC E    E P L +  S I  P+    +Q              E  +G+L    G
Sbjct: 902  KLSNFCFE----ENPVLPKPASTIVGPSTPPLNQ-------------PEIRDGQLLLSFG 944

Query: 1022 NNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMS 1081
             NL S+  K                                             +C ++ 
Sbjct: 945  GNLRSLKLK---------------------------------------------NCMSLL 959

Query: 1082 SAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLK 1141
               P +LL+   NL  L V NC  LE V  LEELN D  H+  + PKL  LRLI LPKL+
Sbjct: 960  KLFPPSLLQ---NLEELIVENCGQLEHVFDLEELNVDDGHV-ELLPKLKELRLIGLPKLR 1015

Query: 1142 RFCNF---------------TGNIIELPELRYLTIENCPDMETFIS 1172
              CN                 GNII  P+L  +T+E+ P++ +F+S
Sbjct: 1016 HICNCGSSRNHFPSSMASAPVGNII-FPKLSDITLESLPNLTSFVS 1060

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 470/1175 (40%), Positives = 679/1175 (57%), Gaps = 112/1175 (9%)

Query: 12   GIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIY 71
             IV + A+ L  PI RQI YV    + I  LK +V++L   R RV   + EA +  +EI 
Sbjct: 6    SIVAKVAELLVVPIKRQIGYVLNCNTNIQNLKNEVEKLTDARTRVNHSIEEARRNGEEIE 65

Query: 72   KDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAAS 131
             +V +WL +VD  I  G      +    + K CF G CP+L  RY+L K A K       
Sbjct: 66   VEVFNWLGSVDGVIDGGGGGVADE----SSKKCFMGLCPDLKIRYRLGKAAKKELTVVVD 121

Query: 132  LVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGV 191
            L  KG F  VS+R AP        KD+EAF+SR  +   +V+AL++  +N++GV+GM GV
Sbjct: 122  LQEKGRFDRVSYRAAPSGIG--PVKDYEAFESRDSVLNAIVDALKDGGVNMVGVYGMPGV 179

Query: 192  GKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQ 251
            GKTTLVK++A+QV E ++FDK V+A V+  PD+++IQ ++A  L L  D    K  RA Q
Sbjct: 180  GKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDK-GRASQ 238

Query: 252  LCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN 311
            L +RL K  RVL+ILD+IWK+L LE++GIP G   E  +        I+++SR++++L+ 
Sbjct: 239  LYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCK--------ILMSSRNEYVLSR 290

Query: 312  DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL 371
            +M S + F I+VL   EA   FEK+VG + K  + + +A E+  +C GLP+ L+TVA AL
Sbjct: 291  EMGSNRNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCAGLPILLATVARAL 350

Query: 372  KNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGT 431
            KNK L  WK AL QL   +  +I   D  V   +ELSY  L  DE KSLFLLC       
Sbjct: 351  KNKDLYAWKKALKQLTRFDKDDI---DDQVYLGLELSYKSLRGDEIKSLFLLCGQLRSNN 407

Query: 432  PIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHV 489
             I ++ LLRYG GL  FK   TLE  RN +  L+D LKASCLLL+GD +  VKMHDV+H 
Sbjct: 408  -ILISDLLRYGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLEGDKDGSVKMHDVVHS 466

Query: 490  VAVSIA-SEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLL 548
             A+S+A  +  + ++ +    KE     + +   AIS+P+  I +LP  LECP L   LL
Sbjct: 467  FAISVALRDHHVLTVAD--EFKEWPANDVLQQYTAISLPFRKIPDLPAILECPNLNSFLL 524

Query: 549  LANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAI 608
            L N D  L+I   FF   ++LK+L L+ ++ S L SSL  L NLQTLCLD C LED++ I
Sbjct: 525  L-NKDPSLQIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTLCLDHCVLEDISII 583

Query: 609  GQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 668
            G+L KL++LS   S+I +LP EIG++ +LQLLDLSNC  L VI+PN +S  +RLE+LYMG
Sbjct: 584  GELNKLKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMG 643

Query: 669  DSFPQWDKVEGGS----NASLAELKGLSKLTTLEIQVQDAQMLPQDLV--FVELPRYRIC 722
            +SF +W+  EG S    NA L+ELK LS L+TL +Q+ DA  +P+DL   F  L R+RI 
Sbjct: 644  NSFVKWE-TEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDLFSSFQNLERFRIF 702

Query: 723  IGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHEL 782
            IG+ W  W     TSR ++L  L  V  L E  G+  LLK+TE++ L+EL GV++++++L
Sbjct: 703  IGDGWD-WSVKDATSRTLKLK-LNTVIQLEE--GVNTLLKITEELHLQELNGVKSILNDL 758

Query: 783  DDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLRED 842
             DGEGFP+L+HL V+ C  + +I+ S+    R  F  L+SL L  L NLE ICH QL  +
Sbjct: 759  -DGEGFPQLRHLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAE 817

Query: 843  QFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGF 902
                NL+I++VESC +LK+LFS S+AR L+RL+++ +  C  +E  V  + E        
Sbjct: 818  S-LGNLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDCKIMEEVVAEESE-------- 868

Query: 903  NEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLS 962
                  +D A                           GE +    I F++L+ L L  L 
Sbjct: 869  ------NDAAD--------------------------GEPI----IEFTQLRRLTLQCLP 892

Query: 963  RLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGN 1022
            + TSF                     N++  S       +  K+  +E    E+    GN
Sbjct: 893  QFTSF-------------------HSNVEESSDS----QRRQKLLASEARSKEI--VAGN 927

Query: 1023 NLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQ-ALPVSFFNNLARLVVDDCTNMS 1081
             L + M  +  +++ F ++  L+LS   ++++IWH Q ++      NLA + V++C N++
Sbjct: 928  ELGTSMSLFNTKIL-FPNLEDLKLSSI-KVEKIWHDQPSVQSPCVKNLASIAVENCRNLN 985

Query: 1082 SAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLK 1141
              + ++++  L  L++LE+ NC S+EE++  E++   K     +FPKL  L LI LPKL 
Sbjct: 986  YLLTSSMVESLAQLKKLEICNCKSMEEIVVPEDIGEGKMMSKMLFPKLLILSLIRLPKLT 1045

Query: 1142 RFCNFTGNIIELPELRYLTIENCPDMETFISNSTS 1176
            RFC  T N++E   L+ LT+ NCP+++ FIS  +S
Sbjct: 1046 RFC--TSNLLECHSLKVLTVGNCPELKEFISIPSS 1078

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  717 bits (1851), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 464/1181 (39%), Positives = 657/1181 (55%), Gaps = 153/1181 (12%)

Query: 12   GIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIY 71
             +  + ++ L +P +RQ+ Y+F Y++ I EL  QV++L   R R+   V EA      I 
Sbjct: 7    SVAAKVSEYLVDPAVRQLGYLFNYRANIEELSQQVQKLRDARARLQHSVDEAIGNGLIIE 66

Query: 72   KDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAAS 131
             DV  W+   D FI    A   ++DE  A+KSCF G CPNL SRY+LS++A+K A  +  
Sbjct: 67   DDVCKWMKRADGFIQN--ACKFLEDEKEARKSCFNGLCPNLKSRYQLSREASKKAGVSVQ 124

Query: 132  LVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGV 191
            ++G G F  V++R AP   + ++ +  EA +SRM    +V+EALR+  +N IGV GMGGV
Sbjct: 125  ILGDGQFEKVAYR-AP--LQGIRCRPSEALESRMLTLNEVMEALRDANINRIGVWGMGGV 181

Query: 192  GKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQ 251
            GK+TLVKQ+A+Q  ++K+F+KVV   V + PD+++IQ +LA  L + F+  +S+  RA +
Sbjct: 182  GKSTLVKQVAEQANQEKLFEKVVNVSVLQTPDLERIQRELADWLGMKFE-EESEQGRAAR 240

Query: 252  LCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN 311
            L QR+  EK +LIILD++W +L LE++GIP  D D K  K       ++LTSR+K +L+N
Sbjct: 241  LHQRMKAEKTILIILDDLWAELELEKVGIPSPD-DHKGCK-------LVLTSRNKQVLSN 292

Query: 312  DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL 371
            +M++QK F +  L ++E    F+   G+S +    QP+A ++  +C GLP+A+ TVA AL
Sbjct: 293  EMSTQKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKAL 352

Query: 372  KNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGT 431
            KNK + +WKDAL QL++     I GM+  V SS++LSY  LE DE KSL LLC LF    
Sbjct: 353  KNKNVSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLCLLCGLFSRY- 411

Query: 432  PIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHV 489
             I +  LL+YG GL  F+   TLE  +NR+D L+DNLK+S  LL+      V+MHD++  
Sbjct: 412  -IHIRDLLKYGVGLRLFQGTNTLEEVKNRIDTLVDNLKSSNFLLETGRNAVVRMHDLVRS 470

Query: 490  VAVSIASEK-LMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLL 548
             A  IASE+  +F+    T   EE  +I +     + + + DI ELPE L CP+L+    
Sbjct: 471  TARKIASEQHHVFTHQKTTVRVEEWSRIDELQVTWVKLHHCDIHELPEGLVCPKLEFFEC 530

Query: 549  LANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAI 608
                +  ++I + FFEG + LKVL L+G+   SL  SL  L NL+TLCLD C+L D+  I
Sbjct: 531  FLKTNLAVKIPNTFFEGMKQLKVLDLTGMQLPSLPLSLQSLANLRTLCLDGCKLGDIVII 590

Query: 609  GQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 668
             +LKKLEILS   SDI+QLP EI QL  L+L DL +   L VI  +VIS   RLE+L M 
Sbjct: 591  AELKKLEILSLMDSDIEQLPREIAQLTHLRLFDLKSSFKLKVIPSDVISSLFRLEDLCME 650

Query: 669  DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWG 728
            +SF QW+  EG SNA LAELK LS LT L+IQ+ DA++LP+D+VF  L RYRI +G+ W 
Sbjct: 651  NSFTQWEG-EGKSNACLAELKHLSHLTALDIQIPDAKLLPKDMVFDNLMRYRIFVGDIW- 708

Query: 729  IWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGF 788
            IW  N +T+R+++L+  +    L++  G+  LLK TED+ L EL G  NV+ +L+  EGF
Sbjct: 709  IWEKNYKTNRILKLNKFDTSLHLVD--GISKLLKRTEDLHLRELCGGTNVLSKLNR-EGF 765

Query: 789  PRLKHLWVERCSEILHIVGSVGRV-HRKVFPLLESLSLYKLINLEAICHSQLREDQFFSN 847
             +LKHL VE   EI +IV S+        FP++E+LSL +LINL+ +CH Q      F  
Sbjct: 766  LKLKHLNVESSPEIQYIVNSMDLTSSHAAFPVMETLSLNQLINLQEVCHGQFPAGS-FGC 824

Query: 848  LKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIA 907
            L+ +EVE CD LK LFS S+AR L RL++ KV  C  +   V         S G  EI  
Sbjct: 825  LRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMVEMV---------SQGRKEIKE 875

Query: 908  DDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSF 967
            D    P                                    F EL+ L L  L +L++F
Sbjct: 876  DAVNVP-----------------------------------LFPELRSLTLKDLPKLSNF 900

Query: 968  CLENYTLEFPSLER-VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNS 1026
            C E    E P L +  S I  P+    +Q              E  +G+L    G NL S
Sbjct: 901  CFE----ENPVLSKPASTIVGPSTPPLNQ-------------PEIRDGQLLLSLGGNLRS 943

Query: 1027 IMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPA 1086
            +  K                                             +C ++    P 
Sbjct: 944  LKLK---------------------------------------------NCMSLLKLFPP 958

Query: 1087 NLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNF 1146
            +LL+   NL+ L +++CD LE+V  LEELN D  H+  + PKL  LRLI LPKL+  CN 
Sbjct: 959  SLLQ---NLQELTLKDCDKLEQVFDLEELNVDDGHV-ELLPKLKELRLIGLPKLRHICNC 1014

Query: 1147 ---------------TGNIIELPELRYLTIENCPDMETFIS 1172
                            GNII  P+L  +T+E+ P++ +F+S
Sbjct: 1015 GSSRNHFPSSMASAPVGNII-FPKLSDITLESLPNLTSFVS 1054

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  713 bits (1841), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/1189 (39%), Positives = 664/1189 (55%), Gaps = 164/1189 (13%)

Query: 13   IVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYK 72
            +V + ++ L  P++RQ+ Y+F Y++ I +L  +V  L   R R    V EA      I  
Sbjct: 8    VVAKVSEYLVGPVVRQLDYLFNYRTNIEDLSQKVDNLRDARARQQHSVDEAIGNGHIIED 67

Query: 73   DVADWLNNVDEFISEGV---AKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAA 129
            DV  W+   D FI  G    A   ++DE  A+KSCF   CPNL SRY+LS++A K A  A
Sbjct: 68   DVCKWMKRADGFIQNGFIQNACKFLEDEKEARKSCFNRLCPNLKSRYQLSREARKRAGVA 127

Query: 130  ASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMG 189
              ++G G F  VS+R AP   + +++   EA +SRM    +V+ ALR+ K+N IGV G+G
Sbjct: 128  VEILGAGQFERVSYR-AP--LQEIRSAPSEALESRMLTLNEVMVALRDAKINKIGVWGLG 184

Query: 190  GVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRA 249
            GVGKTTLVKQ+A+Q  ++K+FDKVV A V E PD++KIQ +LA  L + F+  +S+  RA
Sbjct: 185  GVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFE-EESEQGRA 243

Query: 250  KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
             +L QR+ +EK +LIILD+IW KL LE+IGIP  D  +  +        ++LTSR++H+L
Sbjct: 244  ARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCK--------LVLTSRNEHIL 295

Query: 310  TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN 369
            +N+M++QK F ++ L ++E    F+   G S +    QP+A ++  +C GLP+A+ TVA 
Sbjct: 296  SNEMDTQKDFRVQPLQEDETWILFKNTAG-SIENPELQPIAVDVAKECAGLPLAIVTVAK 354

Query: 370  ALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGE 429
            ALKNK + +WKDAL QL++     + G+  NV SS++LSY  L+  E KS FLLC L  +
Sbjct: 355  ALKNKNVSIWKDALQQLKSQTLTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGLISQ 414

Query: 430  GTPIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVI 487
               I +  LL+YG GL  F+   TLE A+NR+DAL+DNLK+S  LL+      V+MHD++
Sbjct: 415  ND-ISIRDLLKYGVGLRLFQGTNTLEEAKNRIDALVDNLKSSNFLLETGHNAFVRMHDLV 473

Query: 488  HVVAVSIASEKL-MFSIPNVTNLKEEIEKI--IQKGAIAISIPYGDIQELPERLECPQLK 544
               A  IAS++  +F++ N T   E   +I  +QK    +S+   DI+ELPE L CP+L+
Sbjct: 474  RSTARKIASDQHHVFTLQNTTVRVEGWPRIDELQK-VTWVSLHDCDIRELPEGLACPKLE 532

Query: 545  LLLLL-ANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLE 603
            L      N +S ++I + FFE  + LKVL LS +   SL  S     NL+TLCLD C L 
Sbjct: 533  LFGCYDVNTNSAVQIPNNFFEEMKQLKVLDLSRMQLPSLPLSCHCRTNLRTLCLDGCNLG 592

Query: 604  DVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE 663
            ++  I +LKKLEILS  YSDI++LP EI QL  L+L DL     L VI P+VIS  S+LE
Sbjct: 593  EIVIIAELKKLEILSLTYSDIEKLPREIAQLTHLRLFDLKGSYKLKVIPPDVISSLSQLE 652

Query: 664  ELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICI 723
            +L M +SF QW+  EG SNA LAELK LS LT+L+IQ+ DA++LP+D+VF  L RYRI +
Sbjct: 653  DLCMENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFV 711

Query: 724  GEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELD 783
            G+ W  W   SE ++ +QL+  +    L++  G+  LLK TED+ L EL G  NV+ +L 
Sbjct: 712  GDVWS-WGGISEANKTLQLNKFDTSLHLVD--GIIKLLKRTEDLHLRELCGGTNVLSKL- 767

Query: 784  DGEGFPRLKHLWVERCSEILHIVGSVGRV-HRKVFPLLESLSLYKLINLEAICHSQLRED 842
            DGEGF +LKHL VE   EI +IV S+        FP++E+LSL +LINL+ +C  Q    
Sbjct: 768  DGEGFLKLKHLNVESSPEIQYIVNSMDLTPSHGAFPVMETLSLNQLINLQEVCRGQFPAG 827

Query: 843  QFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGF 902
              F  L+ +EVE CD LK LFS S+AR L RL++ KV  C                    
Sbjct: 828  S-FGCLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRC-------------------- 866

Query: 903  NEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRI---AFSELKVLILN 959
                                       + + E+V    +E+KE+ +    F EL+ L L 
Sbjct: 867  ---------------------------KSMVEMVSQGRKEIKEDAVNVPLFPELRSLTLE 899

Query: 960  YLSRLTSFCLENYTLEFPSLER-VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHH 1018
             L +L++FC E    E P L +  S I  P+    +Q              E  +G+L  
Sbjct: 900  DLPKLSNFCFE----ENPVLSKPASTIVGPSTPPLNQ-------------PEIRDGQLLF 942

Query: 1019 WEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCT 1078
              G NL S+                                        NL +     C 
Sbjct: 943  SLGGNLRSL----------------------------------------NLKK-----CM 957

Query: 1079 NMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLP 1138
            ++    P +LL+   NL+ L V NCD LE+V  LEELN D  H+G + PKL  LRLIDLP
Sbjct: 958  SLLKLFPPSLLQ---NLQELTVENCDKLEQVFDLEELNVDDGHVG-LLPKLGKLRLIDLP 1013

Query: 1139 KLKRFCNF---------------TGNIIELPELRYLTIENCPDMETFIS 1172
            KL+  CN                 GNII  P+L Y+++   P++ +F+S
Sbjct: 1014 KLRHICNCGSSRNHFPSSMASAPVGNII-FPKLFYISLGFLPNLTSFVS 1061

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  699 bits (1803), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 462/1183 (39%), Positives = 644/1183 (54%), Gaps = 156/1183 (13%)

Query: 13   IVTEGAKA---LFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDE 69
            +V+  AK    L +P +RQ+ Y+F Y++ I  L +QV++L   R R+   V EA      
Sbjct: 5    VVSVAAKVSEYLVDPAVRQLGYLFNYRANIEHLSLQVEKLRDARARLQHSVDEAIGNGHI 64

Query: 70   IYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAA 129
            I  D   W+   DEFI    A   ++DE  A+KSCF G CPNL SRY+LS++A K A  +
Sbjct: 65   IEDDACKWMKRADEFIQN--ACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAGVS 122

Query: 130  ASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMG 189
              ++G   F  VS+R AP   + +++   EA  SRM    +V+EALR+  +N IGV G+G
Sbjct: 123  VQILGDRQFEKVSYR-AP--LQEIRSAPSEALQSRMLTLNEVMEALRDANINRIGVWGLG 179

Query: 190  GVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRA 249
            GVGK+TLVKQ+A+Q  ++K+F KVVM  V + PD + IQ ++A  L + F+   S+  RA
Sbjct: 180  GVGKSTLVKQVAEQAEQEKLFRKVVMVPVFQTPDFKGIQQQIADKLGMKFE-EVSEQGRA 238

Query: 250  KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
             +L QR+ +E  +LIILD++W +L LE++GIP  D D K  K       ++LTSR+K +L
Sbjct: 239  DRLHQRIKQENTILIILDDLWAELELEKVGIPSPD-DHKGCK-------LVLTSRNKQVL 290

Query: 310  TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN 369
            +N+M++QK F ++ L ++E    F+   G+S K    QP+A ++  +C GLP+A+ TVA 
Sbjct: 291  SNEMSTQKDFRVQHLQEDETWILFKNTAGDSIKNPELQPIAVDVAKECAGLPIAIVTVAK 350

Query: 370  ALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGE 429
            ALKNK + +WKDAL QL++     I GM+  V SS++LSY  LE DE KSL LLC LF  
Sbjct: 351  ALKNKNVSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLCLLCGLFS- 409

Query: 430  GTPIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVI 487
             + I +  LL+YG GL  F+   TLE A+NR+D L+DNLK+S  LL+ D    V+MHD++
Sbjct: 410  -SDIHIGDLLKYGVGLRLFQGTNTLEEAKNRIDTLVDNLKSSNFLLETDHNAYVRMHDLV 468

Query: 488  HVVAVSIASE-KLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLL 546
               A  IASE + +F+    T   EE  +I +     + +   DI ELPE L CP+L+  
Sbjct: 469  RSTARKIASEQRHVFTHQKTTVRVEEWSRIDELQVTWVKLHDCDIHELPEGLVCPKLEFF 528

Query: 547  LLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVA 606
                   S ++I + FFEG + LKVL  S +   SL  S+  L NL+TLCLD C+L D+ 
Sbjct: 529  ECFLKTHSAVKIPNTFFEGMKQLKVLDFSRMQLPSLPLSIQCLANLRTLCLDGCKLGDIV 588

Query: 607  AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELY 666
             I +LKKLEILS   SD++QLP EI QL  L+LLDLS+ S++ VI   VIS   RLE+L 
Sbjct: 589  IIAELKKLEILSLMSSDMEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLFRLEDLC 648

Query: 667  MGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEA 726
            M +SF QW+  EG SNA LAELK LS LT L+IQ+ DA++LP+D+VF  L RYRI +G+ 
Sbjct: 649  MENSFTQWEG-EGKSNACLAELKHLSHLTFLDIQIPDAKLLPKDIVFENLVRYRILVGDV 707

Query: 727  WGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGE 786
            W  W    E +  ++L+  +    L++  G+  LLK TED+ L EL G  NV+ +L+  E
Sbjct: 708  WS-WEEIFEANSTLKLNKFDTSLHLVD--GISKLLKRTEDLHLRELCGGTNVLSKLNR-E 763

Query: 787  GFPRLKHLWVERCSEILHIVGSVGRV-HRKVFPLLESLSLYKLINLEAICHSQLREDQFF 845
            GF +LKHL VE   EI +IV S+        FP++E+LSL +LINL+ +CH Q       
Sbjct: 764  GFLKLKHLNVESSPEIQYIVNSMDLTSSHGAFPVMETLSLNQLINLQEVCHGQFPAGS-L 822

Query: 846  SNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEI 905
              L+ +EVE CD LK LFS S+AR L RL++ KV  C  +   V         S G  EI
Sbjct: 823  GCLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMVEMV---------SQGRKEI 873

Query: 906  IADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLT 965
              D    P                                    F EL+ L L  L +L+
Sbjct: 874  KEDAVNVP-----------------------------------LFPELRYLTLEDLPKLS 898

Query: 966  SFCL-ENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNL 1024
            +FC  EN  L  P+    S I  P+    +Q              E  +G+L    G NL
Sbjct: 899  NFCFEENPVLSKPA----STIVGPSTPPLNQ-------------PEIRDGQLLLSLGGNL 941

Query: 1025 NSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAI 1084
             S+  K                                             +C ++    
Sbjct: 942  RSLKLK---------------------------------------------NCMSLLKLF 956

Query: 1085 PANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFC 1144
            P +LL+   NL  L V NC  LE V  LEELN D  H+  + PKL  LRL  LPKL+  C
Sbjct: 957  PPSLLQ---NLEELIVENCGQLEHVFDLEELNVDDGHV-ELLPKLKELRLSGLPKLRHIC 1012

Query: 1145 NF---------------TGNIIELPELRYLTIENCPDMETFIS 1172
            N                 GNII  P+L  + +E+ P++ +F+S
Sbjct: 1013 NCGSSRNHFPSSMASAPVGNII-FPKLSDIKLESLPNLTSFVS 1054

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  687 bits (1773), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/1229 (38%), Positives = 680/1229 (55%), Gaps = 171/1229 (13%)

Query: 13   IVTEGAKA---LFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDE 69
            +V+  AK    L  P++RQ+ Y+F Y++ I +L  +V++L   R R+   V EA +   +
Sbjct: 5    VVSVAAKVSEYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIRNGHK 64

Query: 70   IYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAA 129
            I  DV  W+   D FI +      ++DE+ A+KSCF G CPNL SRY+LS++A K A  A
Sbjct: 65   IEDDVCKWMTRADGFIQKDC--KFLEDEE-ARKSCFNGLCPNLKSRYQLSREARKKAGVA 121

Query: 130  ASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMG 189
              +   G F   S+R AP   + +++   EA +SRM    +V++ALR+ K+N IGV G+G
Sbjct: 122  VEIHEAGQFERASYR-AP--LQEIRSAPSEALESRMLTLNEVMKALRDAKINKIGVWGLG 178

Query: 190  GVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRA 249
            GVGKTTLVKQ+A+Q  ++K+FDKVV A V E PD++KIQ +LA  L + F+  +S+  RA
Sbjct: 179  GVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFE-EESEQGRA 237

Query: 250  KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
             +L QR+ +EK +LIILD+IW KL LE+IGIP  D  +  +        ++LTSR++H+L
Sbjct: 238  ARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCK--------LVLTSRNEHIL 289

Query: 310  TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN 369
            +N+M++QK F ++ L ++E    F+   G S +    QP+A ++  +C GLP+A+ TVA 
Sbjct: 290  SNEMDTQKDFRVQPLQEDETWILFKNTAG-SIENPELQPIAVDVAKECAGLPLAVVTVAT 348

Query: 370  ALKNKK-LPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFG 428
            ALK +K + +W+DA  QL++     + G+  NV SS++LSY  L+  E KS FLLC L  
Sbjct: 349  ALKGEKSVSIWEDARLQLKSQTSTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGLIS 408

Query: 429  EGTPIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDV 486
            +   I +  LL+YG GL  F+   TLE A+NR+D L+ NLK+S LLL+      V+MHD+
Sbjct: 409  QND-IHIWDLLKYGVGLRLFQGTNTLEEAKNRIDTLVGNLKSSNLLLETGHNAVVRMHDL 467

Query: 487  IHVVAVSIASEKL-MFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQELPERLECPQLK 544
            +   A  IAS++  +F++ N T   E   +I +   +  +S+   DI ELPE L CP+L+
Sbjct: 468  VRSTARKIASDQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIHELPEGLVCPKLE 527

Query: 545  LLLLL-ANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLE 603
            L      N +S ++I + FFE  + LKVL LS +   SL  SL  L NL+TLCLD C++ 
Sbjct: 528  LFGCYDVNTNSAVQIPNKFFEEMKQLKVLDLSRMQLPSLPLSLHCLTNLRTLCLDGCKVG 587

Query: 604  DVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE 663
            D+  I +LKKLEILS + SD++QLP EI QL  L+LLDLS  S L VI  +VIS  S+LE
Sbjct: 588  DIVIIAKLKKLEILSLKDSDMEQLPREIAQLTHLRLLDLSGSSKLKVIPSDVISSLSQLE 647

Query: 664  ELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICI 723
             L M +SF QW+  E  SNA LAELK LS LT+L+IQ++DA++LP+D+VF  L RYRI +
Sbjct: 648  NLCMANSFTQWEG-EAKSNACLAELKHLSHLTSLDIQIRDAKLLPKDIVFDNLVRYRIFV 706

Query: 724  GEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELD 783
            G+ W  WR N ET++ ++L+  +    L+  +G+  LLK TED+ L EL G  NV+ +L 
Sbjct: 707  GDVWR-WRENFETNKTLKLNKFDTSLHLV--HGIIKLLKRTEDLHLRELCGGTNVLSKL- 762

Query: 784  DGEGFPRLKHLWVERCSEILHIVGSVGRV-HRKVFPLLESLSLYKLINLEAICHSQLRED 842
            DGEGF +LKHL VE   EI +IV S+        FP++E+LSL +LINL+ +C  Q    
Sbjct: 763  DGEGFLKLKHLNVESSPEIQYIVNSMDLTPSHGAFPVMETLSLNQLINLQEVCRGQFPAG 822

Query: 843  QFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGF 902
              F  L+ +EV+ C+ LK LFS S+AR L RL+++KV  C                    
Sbjct: 823  S-FGYLRKVEVKDCNGLKCLFSLSVARGLSRLEEIKVTRC-------------------- 861

Query: 903  NEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKE---NRIAFSELKVLILN 959
                                       + + E+V    +E+KE   N   F EL+ L L 
Sbjct: 862  ---------------------------ESMVEMVSQGRKEIKEAAVNVPLFPELRSLTLE 894

Query: 960  YLSRLTSFCL-ENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHH 1018
             L +L++FC  EN  L  P     S I  P+    +Q              E  +G+L  
Sbjct: 895  DLPKLSNFCFEENPVLSKPP----STIVGPSTPPLNQ-------------PEIRDGQLLL 937

Query: 1019 WEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCT 1078
              G NL S+  K                                             +C 
Sbjct: 938  SLGGNLRSLELK---------------------------------------------NCM 952

Query: 1079 NMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLP 1138
            ++    P +LL+   NL  L V NC  LE V  LEELN D  H+  + PKL  L L  LP
Sbjct: 953  SLLKLFPPSLLQ---NLEELRVENCGQLEHVFDLEELNVDDGHV-ELLPKLKELMLSGLP 1008

Query: 1139 KLKRFCNF---------------TGNIIELPELRYLTIENCPDMETFIS---NSTSVLHM 1180
            KL+  CN                 GNII  P+L  +T+E+ P++ +F+S   +S   LH 
Sbjct: 1009 KLRHICNCDSSRNHFPSSMASAPVGNII-FPKLSDITLESLPNLTSFVSPGYHSLQRLHH 1067

Query: 1181 TADNKEAQKLKSEENLLVAN--QIQHLFD 1207
               +     L  E++L+V N   ++ +FD
Sbjct: 1068 ADLDTPFPVLFDEKSLVVENCSSLEAVFD 1096

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  686 bits (1771), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 474/1174 (40%), Positives = 669/1174 (56%), Gaps = 119/1174 (10%)

Query: 12   GIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIY 71
             IV   A+ L  PI RQI YV    + I  LK +V++L   + RV   + EA +  +EI 
Sbjct: 6    SIVATVAELLVVPIKRQIGYVLDCNTNIQNLKNEVEKLTDAKTRVNHSIEEARRNGEEIE 65

Query: 72   KDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAAS 131
             DV +WL +V+  I  G         D + K CF G CP+L  RY+L K A K      +
Sbjct: 66   VDVENWLTSVNGVIGGGGGVV----VDESSKKCFMGLCPDLKLRYRLGKAAKKELTVVVN 121

Query: 132  LVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGV 191
            L  KG F  VS+R AP        KD+EAF+SR  +  D+V+AL++  +N++GV+GMGGV
Sbjct: 122  LQEKGKFDRVSYRAAPSGIG--PVKDYEAFESRNSVLNDIVDALKDCDVNMVGVYGMGGV 179

Query: 192  GKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQ 251
            GKTTL K++A+QV E ++FDKVV+A V+  PD+++IQ ++A  L L  +    K  RA Q
Sbjct: 180  GKTTLAKKVAEQVKEGRLFDKVVLAVVSHTPDIRRIQGEIADGLGLKLNAETDK-GRADQ 238

Query: 252  LCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN 311
            LC+ L K  RVL+ILD+IWK+L LE++GIP G   E  +        I++TSR+K++L+ 
Sbjct: 239  LCEGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCK--------ILMTSRNKNVLSR 290

Query: 312  DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL 371
            +M + + F ++VL   EA  FFEK+VG + K  + QP+A E+  +C GLP+ L+TVA AL
Sbjct: 291  EMGANRNFQVQVLPVREAWNFFEKMVGVTVKNPSVQPVAAEVAKRCAGLPILLATVARAL 350

Query: 372  KNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGT 431
            KN+ L  WKDAL QL   +  EI   D  V S +ELSY  L  DE KSLFLLC  F    
Sbjct: 351  KNEDLYAWKDALKQLTRFDKDEI---DNQVYSCLELSYKALRGDEIKSLFLLCGQFLTYD 407

Query: 432  PIQVASLLRYGKGL--FKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHV 489
               ++ LL+Y  GL  FK   TLE ARNR+  L+D LKASCLLL+GD +  VKMHDV+  
Sbjct: 408  S-SISDLLKYAIGLDLFKGRSTLEEARNRLRTLVDELKASCLLLEGDKDGRVKMHDVVQS 466

Query: 490  VAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLL 549
             A S+AS      I      KE     + +   AIS+PY  I +LP  LECP L   +LL
Sbjct: 467  FAFSVASRDHHVLIV-ADEFKEWPTSDVLQQYTAISLPYRKIPDLPAILECPNLNSFILL 525

Query: 550  ANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIG 609
             N D  L+I   FF   ++LKVL L+ ++ S L SSL  L NLQTLCLD C LED++ +G
Sbjct: 526  -NKDPSLQIPDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCVLEDISIVG 584

Query: 610  QLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
            +LKKL++LS   SDI  LP EIG+L +L LLDLSNC  L VI+PNV+S  +RLEELYMG+
Sbjct: 585  ELKKLKVLSLISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGN 644

Query: 670  SFPQWDKVEGGS----NASLAELKGLSKLTTLEIQVQDAQMLPQDLVFV--ELPRYRICI 723
            SF +W+  EG S    NA L+ELK LS L TL +Q+ DA  + +DL F+  +L R+RI I
Sbjct: 645  SFVKWE-TEGSSSQRNNACLSELKRLSNLITLHMQITDADNMLKDLSFLFQKLERFRIFI 703

Query: 724  GEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELD 783
            G+ W  W     TSR ++L    N    LE + +  LLK TE++ L+EL GV++++++LD
Sbjct: 704  GDGWD-WSVKYATSRTLKLKL--NTVIQLEEW-VNTLLKSTEELHLQELKGVKSILNDLD 759

Query: 784  DGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQ 843
             GE FPRLKHL V+ C  + +I+ S+    R  F  L+SL L  L NLE ICH QL  + 
Sbjct: 760  -GEDFPRLKHLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLDNLEKICHGQLMAES 818

Query: 844  FFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFN 903
                L+I++VESC +LK+LFS S+AR L+RL++                           
Sbjct: 819  L-GKLRILKVESCHRLKNLFSVSMARRLVRLEE--------------------------- 850

Query: 904  EIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSR 963
                                + +  C+ +EE+V     E  EN  A  E           
Sbjct: 851  --------------------ITIIDCKIMEEVVA----EESENDTADGE----------- 875

Query: 964  LTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNN 1023
                      +EF  L R+++   P   +F        +  K+  ++    E+    GN 
Sbjct: 876  ---------PIEFAQLRRLTLQCLPQFTSFHSN-----RRQKLLASDVRSKEI--VAGNE 919

Query: 1024 LNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQ-ALPVSFFNNLARLVVDDCTNMSS 1082
            L + M  +  +++ F ++  L+LS   ++++IWH Q A+      NLA +VV+ C+N++ 
Sbjct: 920  LGTSMSLFNTKIL-FPNLEDLKLSSI-KVEKIWHDQPAVQPPCVKNLASMVVESCSNLNY 977

Query: 1083 AIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKR 1142
             + ++++  L  L RLE+ NC+S+EE++  E +   K     +FPKL  L L  LPKL R
Sbjct: 978  LLTSSMVESLAQLERLEICNCESMEEIVVPEGIGEGKMMSKMLFPKLHLLELSGLPKLTR 1037

Query: 1143 FCNFTGNIIELPELRYLTIENCPDMETFISNSTS 1176
            FC  T N++E   L+ L + NCP+++ FIS  +S
Sbjct: 1038 FC--TSNLLECHSLKVLMVGNCPELKEFISIPSS 1069

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  686 bits (1770), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 459/1214 (37%), Positives = 671/1214 (55%), Gaps = 120/1214 (9%)

Query: 13   IVTEGAKA---LFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDE 69
            +V+  AK    L  P+ RQ+ ++F Y++ + +L  QV +L   R R    V EA ++  +
Sbjct: 5    VVSVAAKVSEYLVAPVGRQLGHLFNYRTNVEDLSQQVAKLRDARARQQHSVDEAIRKGHK 64

Query: 70   IYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAA 129
            I  DV  W    D FI   VA   +++E  A+K+CF G CPNL SRY+LSK+A K A  A
Sbjct: 65   IEDDVCKWFTRADGFIQ--VACKFLEEEKEAQKTCFNGLCPNLKSRYQLSKEARKKAGVA 122

Query: 130  ASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMG 189
              + G G F  VS+RP          K  +  +SRM    +V++ALR+  +N IG+ GMG
Sbjct: 123  VEIHGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKALRDADINTIGIWGMG 182

Query: 190  GVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRA 249
            GVGK TLVKQ+A+Q  ++K+FDKVVM  V + PD ++IQ ++A  L + F+  +S+  RA
Sbjct: 183  GVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGMKFE-EESEQGRA 241

Query: 250  KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
             +L +++ +EK +LIILD+IW +L LE+IGIP  D + K  K       ++LTSR+KH+L
Sbjct: 242  ARLHRKINEEKTILIILDDIWAELELEKIGIPSPD-NHKGCK-------LVLTSRNKHVL 293

Query: 310  TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN 369
            +N+M++QK F +E L  +EA   F+ +VG+S +      +A ++  +C GLP+A+ TVA 
Sbjct: 294  SNEMSTQKDFGVEHLQGDEAWILFKNMVGDSIENPDLLLIATDVAKECTGLPIAIVTVAK 353

Query: 370  ALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGE 429
            ALKNK + +WKDAL QL+      I GM   V S+++LSY  LE DE KSLFLLC LF  
Sbjct: 354  ALKNKNVSIWKDALKQLKTQTSTNITGMGTKVYSTLKLSYKHLEGDEVKSLFLLCGLF-- 411

Query: 430  GTPIQVASLLRYGKG--LFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVI 487
               I +  LL+YG G  LF+   TLE A+NR++ L+DNLKAS LLL+       +MHDV+
Sbjct: 412  SNYIDIRDLLKYGMGLRLFQGTNTLEEAKNRIETLVDNLKASNLLLETRYNAVFRMHDVV 471

Query: 488  HVVAVSIAS-EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLL 546
              VA+ IAS E  +F+      ++E       +    I +   DI+ELPE L        
Sbjct: 472  QNVAIEIASKEHHVFTFQTGVRMEEWPNMDELQKFTMIYLDCCDIRELPEGL-------- 523

Query: 547  LLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVA 606
                N +S L+I + FFEG + LKVL  + +H  SL SSL  L NL+TLCLD C+L D+ 
Sbjct: 524  ----NHNSSLKIPNTFFEGMKQLKVLDFTNMHLPSLPSSLHCLANLRTLCLDACKLGDIT 579

Query: 607  AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELY 666
             I +LKKLEILS   SDI+QLP E+ QL  L+LLDL   S L VI P+VIS  S+LE+L 
Sbjct: 580  IIAELKKLEILSLMDSDIEQLPRELSQLTHLRLLDLKGSSKLKVIPPDVISSLSQLEDLC 639

Query: 667  MGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEA 726
            M +S+ QW+ VEG SNA LAELK LS LTTL+IQ+ DA++ P+D+VF  L +YRI +G+ 
Sbjct: 640  MENSYTQWE-VEGKSNAYLAELKHLSYLTTLDIQIPDAKLFPKDVVFDNLMKYRIFVGDV 698

Query: 727  WGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGE 786
            W  W  N ET++ ++L+  +    L+E  G+  LL+ TED+ L +L G  N++ +LD  +
Sbjct: 699  WS-WEENCETNKTLKLNEFDTSLHLVE--GISKLLRXTEDLHLHDLRGTTNILSKLDR-Q 754

Query: 787  GFPRLKHLWVERCSEILHIVGSVGRV-HRKVFPLLESLSLYKLINLEAICHSQLREDQFF 845
             F +LKHL VE   EI  I+ S+        FP++E+L L +LINL+ +CH Q      F
Sbjct: 755  CFLKLKHLNVESSPEIRSIMNSMDLTPSHHAFPVMETLFLRQLINLQEVCHGQFPSGS-F 813

Query: 846  SNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEI 905
              L+ +EVE CD LK LFS S+AR L RL+++ +  C  +   V   R++          
Sbjct: 814  GFLRKVEVEDCDSLKFLFSLSMARGLSRLKEITMTRCKSMGEIVPQGRKE---------- 863

Query: 906  IADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLT 965
            I D D A  V +P                               F EL+ L L  L +L 
Sbjct: 864  IKDGDDA--VNVP------------------------------LFPELRYLTLQDLPKLI 891

Query: 966  SFCLE----------------------------NYTLEFPSLERVSMIRCPN-MKTFSQG 996
            +FC E                              +L F +L  + M  C + +K F   
Sbjct: 892  NFCFEENLMLSKPVSTIAGRSTSLFNQAEVWNGQLSLSFGNLRSLMMQNCMSLLKVFPSS 951

Query: 997  ILSIPKPCKVQVTE--KEEGELHHWEGNNLN----SIMQKYYKE-MIGFRDIWYLQLSHF 1049
            +    +  +V   E   +  E+   EG N++     ++ K  +  + G   +  L L   
Sbjct: 952  LFQSLQNLEVLKVENCNQLEEIFDLEGLNVDGGHVGLLPKLEEMCLTGCIPLEELILDG- 1010

Query: 1050 PRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEV 1109
             R+ EIW  Q  PV  F  L  L + +  ++   IP+++L+ L+ L +L VR+C S++EV
Sbjct: 1011 SRIIEIWQEQ-FPVESFCRLRVLSICEYRDILVVIPSSMLQRLHTLEKLTVRSCGSVKEV 1069

Query: 1110 LRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNI-IELPELRYLTIENCPDME 1168
            ++LE L  ++ H   +  +L  L L DLP+LK       N+      L  L I +C ++ 
Sbjct: 1070 VQLEGLVDEENHFRAL-ARLRELELNDLPELKYLWKENSNVGPHFQNLEILKIWDCDNLM 1128

Query: 1169 TFISNSTSVLHMTA 1182
              + +S S  ++ +
Sbjct: 1129 NLVPSSVSFHNLAS 1142

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	1209
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.698	0.856	0.254	1.9e-62
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.603	0.794	0.265	2.5e-58
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.651	0.814	0.251	1.5e-43
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.508	0.687	0.261	1.6e-43
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.491	0.668	0.260	2.1e-43
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.508	0.684	0.259	4.8e-41
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.496	0.668	0.248	2.6e-38
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.369	0.527	0.270	3.8e-38
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.380	0.506	0.290	1.2e-37
TAIR|locus:2031356	884	AT1G63360 [Arabidopsis thalian	0.522	0.714	0.250	2.2e-37

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

 Score = 651 (234.2 bits), Expect = 1.9e-62, Sum P(2) = 1.9e-62
 Identities = 229/900 (25%), Positives = 413/900 (45%)

Query:    13 IVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYK 72
             ++ E  + ++E    +++   K++S +  L   ++ L   +  +     E    +D+  +
Sbjct:     7 VIGEILRLMYESTFSRVANAIKFKSNVKALNESLERLTELKGNMSED-HETLLTKDKPLR 65

Query:    73 -DVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQXXXXXXXXXS 131
               +  W    +E IS+   K     E+R   SC     P + SR KL K           
Sbjct:    66 LKLMRWQREAEEVISKARLKL----EERV--SCGMSLRPRM-SR-KLVKILDEVKMLEKD 117

Query:   132 LVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGV 191
              +   +  SV     PE  EH+             +   + + L ++K   IGV GMGGV
Sbjct:   118 GIEFVDMLSVES--TPERVEHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGGV 175

Query:   192 GKTTLVKQIAKQVMED---KVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHR 248
             GKTTLV+ +  ++ E+   + F  V+   V++  D +++Q +              +   
Sbjct:   176 GKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKL 235

Query:   249 AKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL 308
             A+++   L KE++ L+ILD++WK + L+ +GIP        R ++ +   +ILTSR   +
Sbjct:   236 ARRIYVGLMKERKFLLILDDVWKPIDLDLLGIP--------RTEENKGSKVILTSRFLEV 287

Query:   309 LTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA 368
               + M +     ++ L +E+A + F K  G+  ++   + +A  +  +CGGLP+A+ TV 
Sbjct:   288 CRS-MKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVG 346

Query:   369 NALKNKK-LPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLF 427
              A++ KK + +W   L++L  S P  I  ++  +   ++LSY+FLE D+AK  FLLC LF
Sbjct:   347 TAMRGKKNVKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLE-DKAKFCFLLCALF 404

Query:   428 GEGTPIQVASLLRY--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHD 485
              E   I+V  ++RY   +G  + + + E++ N     +++LK  CLL DGD  D VKMHD
Sbjct:   405 PEDYSIEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHD 464

Query:   486 VIHVVAVSIASEKLMFS---IPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQ 542
             V+   A+ I S     S   + + T L++  +  +      +S+    ++ LP+ +E   
Sbjct:   465 VVRDFAIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFC 524

Query:   543 XXXXXXXANGDSYL-EISHLFFEGTEDLKVXXXXXXXXXXXXX-XXXXXXNLQTLCLDWC 600
                      G+  L E+   F +    L++                    +L +L L  C
Sbjct:   525 VKTSVLLLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDC 584

Query:   601 -QLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKF 659
              +L  + ++  L KLE+L    + I + P  + +L + + LDLS    L  I   V+S+ 
Sbjct:   585 FKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRL 644

Query:   660 SRLEELYMGDSFPQWDKVEGGSN---ASLAELKGLSKLTTLEIQVQDAQML--PQDLVFV 714
             S LE L M  S  +W  V+G +    A++ E+  L +L  L I++  +  L   ++    
Sbjct:   645 SSLETLDMTSSHYRWS-VQGETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIK 703

Query:   715 ELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTG 774
              L ++++ +G  + I R   +  RL   H   NVS +     +  LL  T  + L    G
Sbjct:   704 RLKKFQLVVGSRY-ILRTRHDKRRLTISH--LNVSQV----SIGWLLAYTTSLALNHCQG 756

Query:   775 VQNVVHEL-DDGEGFPRLKHLWVERC-----SEILHIVGSVGRVHRKVFPLLESLSLYKL 828
             ++ ++ +L  D +GF  LK L +E       S +  +  +  +    +  LL +L    L
Sbjct:   757 IEAMMKKLVSDNKGFKNLKSLTIENVIINTNSWVEMVSTNTSKQSSDILDLLPNLEELHL 816

Query:   829 --INLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLE 886
               ++LE     Q         LKIIE+  C KL+ L        +  L++++++ C+ L+
Sbjct:   817 RRVDLETFSELQTHLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEISYCDSLQ 876

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 594 (214.2 bits), Expect = 2.5e-58, Sum P(2) = 2.5e-58
 Identities = 205/773 (26%), Positives = 350/773 (45%)

Query:   134 GKGNFSSVS-HRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVG 192
             G+     +S ++ + E  E +    F    + +++   + + L+   +  IGV GMGGVG
Sbjct:    87 GQDLIKKISVNKSSREIVERVLGPSFHPQKTALEMLDKLKDCLKKKNVQKIGVWGMGGVG 146

Query:   193 KTTLVKQIAKQVME---DKVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRA 249
             KTTLV+ +   +++    + F  V+   V+++ D++++Q                     
Sbjct:   147 KTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMN-QLG 205

Query:   250 KQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
               +C+RL   K  L+ILD++W  + L+++GIP      KD K       ++LTSR   + 
Sbjct:   206 LTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSK-------VVLTSRRLEVC 258

Query:   310 TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN 369
                M ++ I  +  L ++EA + F   VG  A +   +P+A ++  +C GLP+A+ T+  
Sbjct:   259 QQMMTNENI-KVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGR 317

Query:   370 ALKNK-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFG 428
              L+ K ++ VWK  L  L+ S P  I   +  +  +++LSY+FL+ D  KS FL C LF 
Sbjct:   318 TLRGKPQVEVWKHTLNLLKRSAP-SID-TEEKIFGTLKLSYDFLQ-DNMKSCFLFCALFP 374

Query:   429 EGTPIQVASLLRY--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDV 486
             E   I+V+ L+ Y   +GL       E+  N    L++ LK SCLL DGD+ D VKMHDV
Sbjct:   375 EDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDGDSCDTVKMHDV 434

Query:   487 IHVVAV---SIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQX 543
             +   A+   S   E     +     L E  +         +S+    ++ LP  +     
Sbjct:   435 VRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNV-IEGV 493

Query:   544 XXXXXXANGDSYL-EISHLFFEGTEDLKVXXXXXXXXXXXXXXXXXXXNLQTLCLDWCQ- 601
                     G+S++ E+ + F +   +L++                   +L++L L  C+ 
Sbjct:   494 ETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKK 553

Query:   602 LEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSR 661
             L ++ ++  L KL+ L    S I++LP  +  L+ L+ + +SN   L  I    I + S 
Sbjct:   554 LRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSS 613

Query:   662 LEELYMGDSFPQWDKVEGGSN---ASLAELKGLSKLTTLEIQVQDAQMLPQ--DLVFVEL 716
             LE L M  S   W  ++G      A+L E+  L  L  L I++ D        D +   L
Sbjct:   614 LEVLDMAGSAYSWG-IKGEEREGQATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSLTKRL 672

Query:   717 PRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQ 776
              +++        +    +    L     + +V+  + N  +  LL+    + L    G+ 
Sbjct:   673 TKFQFLFSPIRSVSPPGTGEGCLA----ISDVN--VSNASIGWLLQHVTSLDLNYCEGLN 726

Query:   777 NVVHEL--DDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAI 834
              +   L       F  +K L +     +    G   ++   +FP LE LSL   +NLE+I
Sbjct:   727 GMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQLD--LFPNLEELSLDN-VNLESI 783

Query:   835 CHSQLREDQFFSNLKIIEVESCDKLKHLFSFSI-ARNLLRLQKVKVASCNKLE 886
                          LK+++V  C +LK LFS  I A  L  LQ++KV SC +LE
Sbjct:   784 GELNGFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLE 836

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 482 (174.7 bits), Expect = 1.5e-43, Sum P(2) = 1.5e-43
 Identities = 215/856 (25%), Positives = 367/856 (42%)

Query:    31 YVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVA 90
             Y+   +  +  L+ ++++L   +  V   V     +  +  + V  WL+ V+    E   
Sbjct:    27 YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIE--C 84

Query:    91 KSIIDDED-RAKKSCFKGFCPNLI-SRYKLSKQXXXXXXXXXSLVGKGNFSSVSHRPAPE 148
             K ++       +K C  G C   + S YK  K+          L  +GNF  VS +P P 
Sbjct:    85 KDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVS-QPPPR 143

Query:   149 STEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK 208
             S   ++ +  +    + ++ +     L  D + I+G+HGMGGVGKTTL K+I  +  E  
Sbjct:   144 S--EVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETG 201

Query:   209 -VFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQL-CQRLTKEKRVLIIL 266
               FD V+   V++   + K+Q+               K    K     R+ K KR +++L
Sbjct:   202 GTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLML 261

Query:   267 DNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSK 326
             D+IW+K+ LE IGIP+          ++ +  +  T+R + +    M   K   ++ L  
Sbjct:   262 DDIWEKVDLEAIGIPY--------PSEVNKCKVAFTTRDQKVC-GQMGDHKPMQVKCLEP 312

Query:   327 EEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKKL-PVWKDAL 383
             E+A + F+  VG++   S      LA E+  KC GLP+ALS +   + +K +   W+ A+
Sbjct:   313 EDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAI 372

Query:   384 TQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYG- 442
               L  S   E   M   +   ++ SY+ LE +  KS FL C LF E   I   +L+    
Sbjct:   373 DVLTRS-AAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWI 431

Query:   443 -KGLFKNVRTLENARNRVDALIDNL-KASCLLLD-GDAEDEVKMHDVIHVVAVSIASE-- 497
              +G     + ++ ARN+   ++  L +A+ L  D G  +  V MHDV+  +A+ IAS+  
Sbjct:   432 CEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIASDFG 491

Query:   498 --KLMFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQELPERLECPQXXXXXXXANGDS 554
               K  + +     L  EI K+   GA+  +S+   +I+E+    +C +       +N   
Sbjct:   492 KQKENYVVRARVGL-HEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSN--Q 548

Query:   555 YLEISHLFFEGTEDLKVXXXXXXXXXXXX-XXXXXXXNLQTLCLDWCQLEDV-AAIGQLK 612
                +S  F    + L V                    +LQ L L W ++E +   + +LK
Sbjct:   549 LKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELK 608

Query:   613 KLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFP 672
             KL  L+  +++       I +L  L+ L L           NV    S L+EL   ++  
Sbjct:   609 KLIFLNLCFTERLCSISGISRLLSLRWLSLRES--------NVHGDASVLKELQQLENLQ 660

Query:   673 QWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRA 732
                  E     SL +   L+KL ++ ++++     P DL F+        +   +G+   
Sbjct:   661 DLRITESAELISLDQR--LAKLISV-LRIEGFLQKPFDLSFLA------SMENLYGLLVE 711

Query:   733 NSETSRL-VQLHGLENVSTLLE-NYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPR 790
             NS  S + ++    E  S+ L  N  +     LT  I + +   ++++   L      P 
Sbjct:   712 NSYFSEINIKCRESETESSYLHINPKIPCFTNLTGLI-IMKCHSMKDLTWILFA----PN 766

Query:   791 LKHLWVERCSEILHIVGSVGRVHRKV----FPLLESLSLYKLINLEAICHSQLREDQFFS 846
             L +L +    E+  I+     ++       F  LE L LY L  LE+I  S L     F 
Sbjct:   767 LVNLDIRDSREVGEIINKEKAINLTSIITPFQKLERLFLYGLPKLESIYWSPLP----FP 822

Query:   847 NLKIIEVESCDKLKHL 862
              L  I V+ C KL+ L
Sbjct:   823 LLSNIVVKYCPKLRKL 838

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 462 (167.7 bits), Expect = 1.6e-43, Sum P(2) = 1.6e-43
 Identities = 171/653 (26%), Positives = 294/653 (45%)

Query:     9 TFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVG--IPVREATQQ 66
             T S    E    + + +   + Y+ +    +  +K  ++ L+ KR+ V   + + E T++
Sbjct:     6 TLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRR 65

Query:    67 RDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQXXXX 125
             R+ +   V  WL NV   +     + +  ++   ++ C  GFC  N+   Y   K+    
Sbjct:    66 RERL-SQVQGWLTNVST-VENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLM 123

Query:   126 XXXXXSLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGV 185
                  SL  +G+F +V+        E M  +       +  + + V   L  D   I+G+
Sbjct:   124 LKEIESLSSQGDFDTVTLATPIARIEEMPIQP--TIVGQETMLERVWTRLTEDGDEIVGL 181

Query:   186 HGMGGVGKTTLVKQIAKQVMED-KVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXX--X 242
             +GMGGVGKTTL+ +I  +  E    F  V+   V+++PD+ +IQ                
Sbjct:   182 YGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDN 241

Query:   243 XXKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILT 302
               +  RA  +   L K+K VL+ LD+IW+K+ LE +G+P+       R+   +   ++ T
Sbjct:   242 VNENQRALDIYNVLGKQKFVLL-LDDIWEKVNLEVLGVPY-----PSRQNGCK---VVFT 292

Query:   303 SRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVG-NSAKASAFQP-LADEIVGKCGGL 360
             +RS+ +    M       +  L   EA + F+  VG N+ K     P LA ++ GKC GL
Sbjct:   293 TRSRDVCGR-MRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGL 351

Query:   361 PVALSTVANALKNKKL-PVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKS 419
             P+AL+ +   +  K++   W++A+  L +S   E  GM+  +   ++ SY+ L  ++ K 
Sbjct:   352 PLALNVIGETMACKRMVQEWRNAIDVL-SSYAAEFPGME-QILPILKYSYDNLNKEQVKP 409

Query:   420 LFLLCTLFGEGTPIQVASLLRYG--KGLFKNVRTLENARNRVDALIDNLKASCLLLDGDA 477
              FL C+LF E   ++   L+ Y   +G      + E A ++   +I  L  +CLLL+   
Sbjct:   410 CFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYEIIGILVRACLLLEEAI 469

Query:   478 -EDEVKMHDVIHVVAVSIAS---EKLMFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQ 532
              +++VKMHDV+  +A+ IAS   E     I  V     E+ K+    ++  +S+   +I+
Sbjct:   470 NKEQVKMHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLMENEIE 529

Query:   533 ELPERLECPQXXXXXXXANGDSYLEISHLFFEGTEDLKVXXXXXXXXXXXX-XXXXXXXN 591
              L    EC +        N DS L IS  FF     L V                    +
Sbjct:   530 ILSGSPECLELTTLFLQKN-DSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVS 588

Query:   592 LQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSD-IKQLP--LEIGQLAQLQLL 640
             L+ L L W  ++ +   + +LKKL  L   Y   +K +     I  L +LQLL
Sbjct:   589 LRYLDLSWTYIKRLPVGLQELKKLRYLRLDYMKRLKSISGISNISSLRKLQLL 641

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 454 (164.9 bits), Expect = 2.1e-43, Sum P(3) = 2.1e-43
 Identities = 165/633 (26%), Positives = 282/633 (44%)

Query:    27 RQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFIS 86
             R   Y+   +  +  L+  ++++E +RE +   +    ++  +    V  W++ V+  + 
Sbjct:    24 RNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVP 83

Query:    87 EGVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQXXXXXXXXXSLVGKGNFSSVSHRP 145
               V + +     + ++ C  GFC  NL+S Y+  K+          L  +G+F+ V+ R 
Sbjct:    84 R-VNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERV 142

Query:   146 APESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM 205
                  E    +   A D    + +     L  D++ I+G+HGMGGVGKTTL+  I  +  
Sbjct:   143 DAARVEERPTRPMVAMDP---MLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFS 199

Query:   206 E-DKVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQL-CQRLTKEKRVL 263
                  FD V+   V++   +Q+IQD+              K    K      + K KR +
Sbjct:   200 RVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFV 259

Query:   264 IILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEV 323
             ++LD+IW K+ L E+G+PF       R+   +   I+ T+R K +    M       +  
Sbjct:   260 LLLDDIWSKVDLTEVGVPF-----PSRENGCK---IVFTTRLKEICGR-MGVDSDMEVRC 310

Query:   324 LSKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWK 380
             L+ ++A   F K VG     S      +A  +  KC GLP+AL+ +   +  K+ +  W+
Sbjct:   311 LAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWR 370

Query:   381 DALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLR 440
              A+  L  S+  E  GM+  +   ++ SY+ L+S++ K  F  C LF E   I+   L+ 
Sbjct:   371 SAIDVL-TSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVD 429

Query:   441 Y--GKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASE- 497
             Y  G+G     R    A N+   +I  L  SCLL++ + ++ VKMHDV+  +A+ IAS+ 
Sbjct:   430 YWIGEGFID--RNKGKAENQGYEIIGILVRSCLLME-ENQETVKMHDVVREMALWIASDF 486

Query:   498 ---KLMFSIPNVTNLKE--EIEKIIQKGAIAISIPYGDIQELPERLECPQXXXXXXXANG 552
                K  F +      +   EIEK   K A  +S+ + +I+ + +  E PQ        N 
Sbjct:   487 GKQKENFIVQAGLQSRNIPEIEK--WKVARRVSLMFNNIESIRDAPESPQLITLLLRKN- 543

Query:   553 DSYL-EISHLFFEGTEDLKVXXXXXXXXXXXXXXXXXX-XNLQTLCLDWCQLED-VAAIG 609
               +L  IS  FF     L V                    +LQ L L   ++    A + 
Sbjct:   544 --FLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLV 601

Query:   610 QLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDL 642
             +L+KL  L+  Y+ + +    I  L  L++L L
Sbjct:   602 ELRKLLYLNLEYTRMVESICGISGLTSLKVLRL 634

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 453 (164.5 bits), Expect = 4.8e-41, Sum P(3) = 4.8e-41
 Identities = 169/652 (25%), Positives = 285/652 (43%)

Query:    30 SYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGV 89
             SY+   +  +  L+ ++++L   +  V   V     +     + V  WL+ V+    E  
Sbjct:    25 SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIE-- 82

Query:    90 AKSIIDDED-RAKKSCFKGFCPNLI-SRYKLSKQXXXXXXXXXSLVGKGNFSSVSHRPAP 147
              K ++       +K C  G C   + S YK  K+          L  +GNF  VS +P P
Sbjct:    83 CKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVS-QPPP 141

Query:   148 ESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME- 206
              S   ++ +  +    +  + +     L  D + I+G+HGMGGVGKTTL K+I  +  E 
Sbjct:   142 RS--EVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEI 199

Query:   207 DKVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQL-CQRLTKEKRVLII 265
                FD V+   V++   + K+Q+               K    K     R+ K KR +++
Sbjct:   200 GGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLM 259

Query:   266 LDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLS 325
             LD+IW+K+ LE IGIP+          ++ +  +  T+RS+ +   +M   K   +  L 
Sbjct:   260 LDDIWEKVDLEAIGIPY--------PSEVNKCKVAFTTRSREVC-GEMGDHKPMQVNCLE 310

Query:   326 KEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKKL-PVWKDA 382
              E+A + F+  VG++  +S      LA E+  KC GLP+AL+ +   + +K +   W+ A
Sbjct:   311 PEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHA 370

Query:   383 LTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYG 442
             +  + N++  E   M   +   ++ SY+ L  +  KS FL C LF E   I    L+ Y 
Sbjct:   371 I-HVFNTSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYW 429

Query:   443 --KGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASE--- 497
               +G     + ++ ARN+  A++  L  + LL        V MHDV+  +A+ IAS+   
Sbjct:   430 ICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTYYCV-MHDVVREMALWIASDFGK 488

Query:   498 -KLMFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQELPERLECPQXXXXXXXANGDSY 555
              K  F +     L  EI K+   GA+  +S+   DI+E+    +C +       +N    
Sbjct:   489 QKENFVVQAGVGL-HEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSN--KL 545

Query:   556 LEISHLFFEGTEDLKVXXXXXXXXXXXX-XXXXXXXNLQTLCLDWCQLEDVA-AIGQLKK 613
               +   F    + L V                    +LQ L L    +E +   + +LKK
Sbjct:   546 KNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKK 605

Query:   614 LEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEEL 665
             L  L   Y+D       I +L  L+LL L    S V    +V+ +  +L+ L
Sbjct:   606 LTFLDLTYTDRLCSISGISRLLSLRLLRL--LGSKVHGDASVLKELQQLQNL 655

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 417 (151.9 bits), Expect = 2.6e-38, Sum P(2) = 2.6e-38
 Identities = 159/639 (24%), Positives = 284/639 (44%)

Query:    28 QISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISE 87
             ++SY    +  +  L+  ++EL+ KR+ +   ++    +  +   ++  WLN V E I  
Sbjct:    23 KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRV-ETIES 81

Query:    88 GVAKSIIDDEDRAKKSCFKGFCP-NLISRYKLSKQXXXXXXXXXSLVGKGNFSSVSHRPA 146
              V   +       ++ C  GFC  +L + Y+  K           L  +  F  +S + +
Sbjct:    82 RVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKLERRV-FEVISDQAS 140

Query:   147 PESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME 206
                 E  Q +       +  +  +    L  D + I+G++GMGGVGKTTL+ QI  +  +
Sbjct:   141 TSEVEEQQLQP--TIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSK 198

Query:   207 DKV-FDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQL-CQRLTKEKRVLI 264
                 FD V+   V++  +V+ I D+              K    K +      ++ R ++
Sbjct:   199 YMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFVL 258

Query:   265 ILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVL 324
              LD+IW+K+ L EIG+PF  +  K +        ++ T+RS  + T+ M  +K   ++ L
Sbjct:   259 FLDDIWEKVNLVEIGVPFPTIKNKCK--------VVFTTRSLDVCTS-MGVEKPMEVQCL 309

Query:   325 SKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWKD 381
             +  +A   F+K VG     S    + L+  +  KC GLP+AL+ V+  +  K+ +  W+ 
Sbjct:   310 ADNDAYDLFQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRH 369

Query:   382 ALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY 441
             A+  L NS   +  GMD  +   ++ SY+ L+ ++ K   L C LF E   I+  +L+ Y
Sbjct:   370 AIYVL-NSYAAKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEY 428

Query:   442 G--KGLFKNVRTLENARNRVDALIDNLKASCLLLDG---DAEDEVKMHDVIHVVAVSIAS 496
                + +      ++ A N+   +I +L  + LL++    D  + V +HDV+  +A+ IAS
Sbjct:   429 WICEEIIDGSEGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIAS 488

Query:   497 E----KLMFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQELPERLECPQXXXXXXXAN 551
             +       F +     L+E I K+     +  +S+   +I  L  RL+C +       + 
Sbjct:   489 DLGKQNEAFIVRASVGLRE-ILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQS- 546

Query:   552 GDSYLE-ISHLFFEGTEDLKVXXXXXXXXXXXX-XXXXXXXNLQTLCLDWCQLEDVA-AI 608
               ++LE IS  FF     L V                    +LQ L L    +  +   +
Sbjct:   547 --THLEKISSEFFNSMPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSSTGIRHLPKGL 604

Query:   609 GQLKKLEILSF-RYSDIKQLPLEIGQLAQLQLLDLSNCS 646
              +LKKL  L   R S +  + + I  L  L++L LS  S
Sbjct:   605 QELKKLIHLYLERTSQLGSM-VGISCLHNLKVLKLSGSS 642

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 402 (146.6 bits), Expect = 3.8e-38, Sum P(2) = 3.8e-38
 Identities = 130/481 (27%), Positives = 235/481 (48%)

Query:    30 SYVFKYQSYIAELKVQVKELEYKRE----RVGIPVREATQQRDEIYKDVADWLNNVDEFI 85
             +Y+   +S +  L+  ++EL+  R+    RV I   +   QR  +   V  WL+ V   I
Sbjct:    26 NYIHLMESNLDALQKTMEELKNGRDDLLARVSIE-EDKGLQRLAL---VNGWLSRVQ--I 79

Query:    86 SEGVAKSIIDDED-RAKKSCFKGFCP-NLISRYKLSKQXXXXXXXXXSLVGKGNFSSVSH 143
              E   K +++       + C  G+C  + IS Y    +          L+ K NF  V+ 
Sbjct:    80 VESEFKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQ 139

Query:   144 RPAPESTE-HMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAK 202
             +  P++ + H+Q       D+ + +     E+L +D++  +G++GMGG+GKTTL++ +  
Sbjct:   140 KIIPKAEKKHIQTT--VGLDTMVGI---AWESLIDDEIRTLGLYGMGGIGKTTLLESLNN 194

Query:   203 QVME-DKVFDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQLCQRLTKEKR 261
             + +E +  FD V+   V+++  ++ IQD+                 +   L     K K+
Sbjct:   195 KFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETESKKASLINNNLKRKK 254

Query:   262 VLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLI 321
              +++LD++W ++ L +IG+P        R+   +   I+ T+RSK +  + M + K   +
Sbjct:   255 FVLLLDDLWSEVDLIKIGVP-----PPSRENGSK---IVFTTRSKEVCKH-MKADKQIKV 305

Query:   322 EVLSKEEALQFFEKIVGNSAKASA--FQPLADEIVGKCGGLPVALSTVANALKNKK-LPV 378
             + LS +EA + F   VG+    S      LA  +  KC GLP+AL+ +  A+  K+ +  
Sbjct:   306 DCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQE 365

Query:   379 WKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASL 438
             W+ A+  L NS   +  GM+  +   ++ SY+ L++ E K  FL C+LF E   I+   L
Sbjct:   366 WRHAINVL-NSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKL 424

Query:   439 LRYG--KGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIAS 496
             + Y   +G     R  +   N+   +I  L  + LL++ +  D+VKMHDVI  +A+ I S
Sbjct:   425 IEYWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLLIECELTDKVKMHDVIREMALWINS 484

Query:   497 E 497
             +
Sbjct:   485 D 485

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 434 (157.8 bits), Expect = 1.2e-37, Sum P(4) = 1.2e-37
 Identities = 143/492 (29%), Positives = 253/492 (51%)

Query:   167 LFQDVVEAL-RNDKLNIIGVHGMGGVGKTTLVKQIAKQVM-EDKVFDKVVMAEVTENPDV 224
             + + V+E L   ++  IIGV+G GGVGKTTL++ I  +++ +   +D ++  +++     
Sbjct:   161 MMEQVLEFLSEEEERGIIGVYGPGGVGKTTLMQSINNELITKGHQYDVLIWVQMSREFGE 220

Query:   225 QKIQDKXXXXXXXXXXXXXXKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGD 284
               IQ                  +RA ++ + L ++KR L++LD++W+++ LE+ G+P  D
Sbjct:   221 CTIQQAVGARLGLSWDEKETGENRALKIYRAL-RQKRFLLLLDDVWEEIDLEKTGVPRPD 279

Query:   285 VDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFF-EKIVGNSA-K 342
              + K +        ++ T+RS   L N+M ++    +E L K+ A + F  K+      +
Sbjct:   280 RENKCK--------VMFTTRSI-ALCNNMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLE 330

Query:   343 ASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPV-WKDALTQLRNSNPREIHGMDANV 401
             +S+ + LA+ IV KCGGLP+AL T+  A+ +++    W  A +++    P E+ GM+  V
Sbjct:   331 SSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEEEWIHA-SEVLTRFPAEMKGMNY-V 388

Query:   402 CSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY--GKGLFKNVRTLENARNRV 459
              + ++ SY+ LESD  +S FL C LF E   I++  L+ Y  G+G   +   + N   + 
Sbjct:   389 FALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGV-NTIYKG 447

Query:   460 DALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEK-----LMFSIPNVTNLKE-EI 513
               LI +LKA+CLL  GD + +VKMH+V+   A+ +ASE+     L+   P++ + +  + 
Sbjct:   448 YFLIGDLKAACLLETGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKA 507

Query:   514 EKIIQKGAIAISIPYGDIQELPERLECPQXXXXXXXANGDSYLEISHLFFEGTEDLKVXX 573
             E   Q  A+ IS+    IQ LPE+L CP+        N  S  +I   FF     L+V  
Sbjct:   508 ENWRQ--ALVISLLDNRIQTLPEKLICPKLTTLMLQQNS-SLKKIPTGFFMHMPVLRVLD 564

Query:   574 XXXXXXXXXXXXXXXXXNLQTLCLDWCQLEDVAA-IGQLKKLEILSFRYSDIKQ-LPLE- 630
                               L  L +   ++  +   +G L+KL+ L  + +   Q +P + 
Sbjct:   565 LSFTSITEIPLSIKYLVELYHLSMSGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDA 624

Query:   631 IGQLAQLQLLDL 642
             I  L++L++L+L
Sbjct:   625 ICWLSKLEVLNL 636

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:2031356 AT1G63360 [Arabidopsis thaliana (taxid:3702)]

 Score = 413 (150.4 bits), Expect = 2.2e-37, Sum P(2) = 2.2e-37
 Identities = 172/686 (25%), Positives = 292/686 (42%)

Query:    28 QISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISE 87
             ++SY    +  +A L+  +KEL+ KR+ +   ++    +  +   +   WL++V     E
Sbjct:    23 KVSYTHNLEKNLAALEKTMKELKAKRDDLERRLKREEARGLQRLSEFQVWLDSVATV--E 80

Query:    88 GVAKSIIDDED-RAKKSCFKGFCPNLISR-YKLSKQXXXXXXXXXSLVGKGNFSSVSHRP 145
              +  +++ D +   ++ C   FC   ++R Y+  K           L G+  F  ++ + 
Sbjct:    81 DIIITLLRDRNVEIQRLCLCRFCSKSLTRSYRYGKSVFLRLREVEKLKGEV-FGVITEQA 139

Query:   146 APESTEHMQAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM 205
             +  + E    +        M       + L  D + I+G++GMGGVGKTTL+ Q+     
Sbjct:   140 STSAFEERPLQPTIVGQDTM--LDKAGKHLMEDGVGIMGMYGMGGVGKTTLLTQLYNMFN 197

Query:   206 EDKV-FDKVVMAEVTENPDVQKIQDKXXXXXXXXXXXXXXKPHRAKQLC-QRLTKEKRVL 263
             +DK  FD  +   V++   V+K+QD+              K    K +C   + +EK  +
Sbjct:   198 KDKCGFDIGIWVVVSQEFHVEKVQDEIAQKLGLGGDEWTQKDKSQKGICLYNILREKSFV 257

Query:   264 IILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEV 323
             + LD+IW+K+ L EIG+P    D + +K     R +  T+RS+ +    M  +    ++ 
Sbjct:   258 LFLDDIWEKVDLAEIGVP----DPRTKKG----RKLAFTTRSQEVCAR-MGVEHPMEVQC 308

Query:   324 LSKEEALQFFEKIVGNSAKAS--AFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWK 380
             L +  A   F+K VG +   S      LA  +  KC GLP+AL+ +   +  K+ +  W+
Sbjct:   309 LEENVAFDLFQKKVGQTTLGSDPGIPQLARIVAKKCCGLPLALNVIGETMSCKRTIQEWR 368

Query:   381 DALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLR 440
              A+  L NS   E  GM+  V   ++ SY+ L+ ++ KS  L C L+ E   I    L+ 
Sbjct:   369 HAIHVL-NSYAAEFIGMEDKVLPLLKYSYDNLKGEQVKSSLLYCALYPEDAKILKEDLIE 427

Query:   441 YG--KGLFKNVRTLENARNRVDALIDNLKASCLLL---DGDAEDEVKMHDVIHVVAVSIA 495
             +   + +      +E A ++   +I  L  + LL+   DGD    V MHDV+  +A+ IA
Sbjct:   428 HWICEEIIDGSEGIEKAEDKGYEIIGCLVRASLLMEWDDGDGRRAVCMHDVVREMALWIA 487

Query:   496 SE----KLMFSIPNVTNLKEEIEKIIQKGAIA-ISIPYGDIQELPERLECPQXXXXXXXA 550
             SE    K  F +     ++E I KI     +  +S+    I  L    EC +        
Sbjct:   488 SELGIQKEAFIVRAGVGVRE-IPKIKNWNVVRRMSLMENKIHHLVGSYECMELTTLLLGK 546

Query:   551 NGDSYLEISHLFFEGTEDLKVXXXXXXXXXXXXXXXXXXXNLQTLCLDWCQLEDVAAIGQ 610
                 Y  I          LK                    N     L     E+++ +  
Sbjct:   547 R--EYGSIR-------SQLKTISSEFFNCMPKLAVLDLSHNKSLFELP----EEISNLVS 593

Query:   611 LKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS 670
             LK L +L   Y++I  LP  I +L ++  L+L     L  I    IS    L+ L +  S
Sbjct:   594 LKYLNLL---YTEISHLPKGIQELKKIIHLNLEYTRKLESITG--ISSLHNLKVLKLFRS 648

Query:   671 FPQWDKVEGGSNASLAELKGLSKLTT 696
                WD     +   L  L+ L  LTT
Sbjct:   649 RLPWDL---NTVKELETLEHLEILTT 671

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

Your Input: eugene3.03110007 cc-nbs-lrr resistance protein (1315 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	1209
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-43
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-09
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	6e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	9e-06
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.004

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

 Score =  160 bits (406), Expect = 1e-43
 Identities = 88/287 (30%), Positives = 139/287 (48%), Gaps = 27/287 (9%)

Query: 168 FQDVVEAL------RNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN 221
            +D++EAL       +D L ++G+ GMGGVGKTTL KQI         FD V    V++ 
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 222 PDVQKIQDKLASDLDLNF----DLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEE 277
               ++Q  +  +L L+     + N+S+   A ++ + L   KR L++LD++W+K   ++
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESE--LAVKIKEAL-LRKRFLLVLDDVWEKNDWDK 117

Query: 278 IGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIV 337
           IG+PF D +   R        +I+T+RS+ +      + K   +E L  EE+ + F   V
Sbjct: 118 IGVPFPDGENGSR--------VIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKV 169

Query: 338 G--NSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKK-LPVWKDALTQLRNSNPREI 394
                      + +A EIV KC GLP+AL  +   L  K  +  W+  L QL N      
Sbjct: 170 FEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNE-LAGR 228

Query: 395 HGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY 441
            G++  V S + LSY+ L     K  FL   LF E   I+   L++ 
Sbjct: 229 DGLN-EVLSILSLSYDNLP-MHLKRCFLYLALFPEDYNIRKEQLIKL 273

Length = 285

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

 Score = 62.6 bits (152), Expect = 1e-09
 Identities = 128/562 (22%), Positives = 223/562 (39%), Gaps = 144/562 (25%)

Query: 175 LRNDKLNIIGVHGMGGVGKTT----LVKQIAKQVMEDKVFDKVVMAEVTE-----NPDVQ 225
           L ++++ ++G+ G  G+GKTT    L  ++++Q       D+  +++  E     NPD  
Sbjct: 202 LESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDY 261

Query: 226 KIQDKLASD-LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGD 284
            ++  L    L    D  D K +    + +RL K ++VLI +D                D
Sbjct: 262 NMKLHLQRAFLSEILDKKDIKIYHLGAMEERL-KHRKVLIFID----------------D 304

Query: 285 VDEKDRKQDLRRRT--------IILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFF-EK 335
           +D++D    L  +T        II+ ++ KH L        I+ + + S E AL+ F   
Sbjct: 305 LDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAH-GIDHIYEVCLPSNELALEMFCRS 363

Query: 336 IVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIH 395
               ++    F  LA E+  + G LP+ L+ + + L+ +    W D L +LRN       
Sbjct: 364 AFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRN------- 416

Query: 396 GMDANVCSSIELSYNFLESDEAKSLF--LLCTLFGEGTP--------------------- 432
           G+D  +  ++ +SY+ L + + K++F  + C   GE                        
Sbjct: 417 GLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLV 476

Query: 433 -----------IQVASLLR-YGKGLFKNVRTLEN----------ARNRVDALIDNLKASC 470
                      +++ SLL+  GK +   VR   N          A++  D L DN     
Sbjct: 477 DKSLIHVREDIVEMHSLLQEMGKEI---VRAQSNEPGEREFLVDAKDICDVLEDNTGTKK 533

Query: 471 LL---LDGDAEDEVKMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIP 527
           +L   LD D  DE+ +H            E     + N+  LK   +K  QK  +   +P
Sbjct: 534 VLGITLDIDEIDELHIH------------ENAFKGMRNLLFLKFYTKKWDQKKEVRWHLP 581

Query: 528 YGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLG 587
            G    LP +L                               ++L         + S+  
Sbjct: 582 EG-FDYLPPKL-------------------------------RLLRWDKYPLRCMPSNF- 608

Query: 588 HLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYS-DIKQLPLEIGQLAQLQLLDLSNC 645
              NL  L +   +LE +   +  L  L  +  R S ++K++P ++     L+ L LS+C
Sbjct: 609 RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDC 667

Query: 646 SSLVVIAPNVISKFSRLEELYM 667
           SSLV + P+ I   ++LE+L M
Sbjct: 668 SSLVEL-PSSIQYLNKLEDLDM 688

syringae 6; Provisional. Length = 1153

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

 Score = 53.0 bits (127), Expect = 6e-07
 Identities = 44/134 (32%), Positives = 60/134 (44%), Gaps = 5/134 (3%)

Query: 534 LPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQ 593
           + E LE   L  L L  N  +  +I  L      +LK L LS     SL S L +L NL+
Sbjct: 109 ISELLELTNLTSLDLDNNNIT--DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLK 166

Query: 594 TLCLDWCQLEDVAA-IGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIA 652
            L L +  L D+   +  L  L  L    + I  LP EI  L+ L+ LDLSN S + +  
Sbjct: 167 NLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIEL-- 224

Query: 653 PNVISKFSRLEELY 666
            + +S    L  L 
Sbjct: 225 LSSLSNLKNLSGLE 238

Length = 394

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 47.4 bits (112), Expect = 5e-06
 Identities = 23/127 (18%), Positives = 47/127 (37%), Gaps = 6/127 (4%)

Query: 179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN 238
              +I + G  G GKTTL + +A+++         +  E      + ++       +   
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLI----IVGG 56

Query: 239 FDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWK--KLGLEEIGIPFGDVDEKDRKQDLRR 296
              + S   R +       K K  ++ILD I        E + +   ++      +  + 
Sbjct: 57  KKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN 116

Query: 297 RTIILTS 303
            T+ILT+
Sbjct: 117 LTVILTT 123

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 45.7 bits (109), Expect = 9e-06
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 185 VHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDS 244
           + G  G GKTTL++++A+Q+       +VV  E       + +  K+   L L      +
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN----RRVVYVEAPSLGTPKDLLRKILRALGLPLS-GGT 63

Query: 245 KPHRAKQLCQRLTKEKRVLIILDNI 269
                + +   L +  R L+I+D  
Sbjct: 64  TAELLEAILDALKRRGRPLLIIDEA 88

Length = 124

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

 Score = 35.9 bits (84), Expect = 0.004
 Identities = 13/38 (34%), Positives = 18/38 (47%)

Query: 591 NLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP 628
           NL+TL L   Q+ D+  +  L  LE L    + I  L 
Sbjct: 2   NLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLS 39

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1209
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
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.96
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.95
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.84
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.82
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.72
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.72
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.7
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.7
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.67
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.64
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.62
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.37
PRK04841	903	transcriptional regulator MalT; Provisional	99.36
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.26
KOG4341	483	consensus F-box protein containing LRR [General fu	99.21
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.19
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.17
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.16
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.14
KOG4341	483	consensus F-box protein containing LRR [General fu	99.12
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.09
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.07
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.07
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.06
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.99
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.97
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.96
PF05729	166	NACHT: NACHT domain	98.96
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.92
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.9
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.73
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.7
PRK13342	413	recombination factor protein RarA; Reviewed	98.7
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.7
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.67
COG3899	849	Predicted ATPase [General function prediction only	98.6
PRK06893	229	DNA replication initiation factor; Validated	98.59
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.54
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.52
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.51
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.47
PRK12402	337	replication factor C small subunit 2; Reviewed	98.46
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.45
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.45
PLN03025	319	replication factor C subunit; Provisional	98.44
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.43
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.41
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.41
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.4
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.4
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.4
COG3903	414	Predicted ATPase [General function prediction only	98.38
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.38
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.37
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.36
PF13173	128	AAA_14: AAA domain	98.35
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.33
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.31
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.31
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.3
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.29
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.29
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.25
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.25
KOG2028	554	consensus ATPase related to the helicase subunit o	98.24
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.24
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.24
PRK13341	725	recombination factor protein RarA/unknown domain f	98.23
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.23
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.22
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.21
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.21
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.2
PTZ00202	550	tuzin; Provisional	98.19
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.19
cd01128	249	rho_factor Transcription termination factor rho is	98.19
PRK04195	482	replication factor C large subunit; Provisional	98.18
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.18
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.17
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.17
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.17
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.15
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.14
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.14
PRK08084	235	DNA replication initiation factor; Provisional	98.13
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.13
PRK08727	233	hypothetical protein; Validated	98.13
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.12
PRK09087	226	hypothetical protein; Validated	98.1
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.09
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.09
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.08
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.07
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.07
PRK09376	416	rho transcription termination factor Rho; Provisio	98.07
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.06
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.04
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.02
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.98
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.98
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.97
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.97
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.96
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.96
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.95
PRK15386	426	type III secretion protein GogB; Provisional	97.95
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.95
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.94
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.92
TIGR00767	415	rho transcription termination factor Rho. Members	97.9
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.9
PF14516	331	AAA_35: AAA-like domain	97.89
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.86
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.86
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.85
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.84
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.81
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.81
PHA02544	316	44 clamp loader, small subunit; Provisional	97.8
PRK05642	234	DNA replication initiation factor; Validated	97.8
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.8
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.79
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.78
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.78
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.77
PLN03150	623	hypothetical protein; Provisional	97.77
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.75
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.74
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.74
PLN03150	623	hypothetical protein; Provisional	97.73
CHL00095	821	clpC Clp protease ATP binding subunit	97.72
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.72
PRK15386	426	type III secretion protein GogB; Provisional	97.71
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.68
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.67
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.63
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.63
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.62
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.62
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.55
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.54
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.5
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.5
CHL00181	287	cbbX CbbX; Provisional	97.49
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.48
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.48
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.46
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.43
PRK10865	857	protein disaggregation chaperone; Provisional	97.43
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.42
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.41
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.41
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.41
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.38
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.37
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.36
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.35
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.34
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.32
PRK06620	214	hypothetical protein; Validated	97.31
PRK08181	269	transposase; Validated	97.31
CHL00176	638	ftsH cell division protein; Validated	97.31
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.31
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.29
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.29
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.25
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.23
PRK10536	262	hypothetical protein; Provisional	97.23
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.2
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.2
PRK12422	445	chromosomal replication initiation protein; Provis	97.19
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.17
PF00004	132	AAA: ATPase family associated with various cellula	97.16
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.11
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.11
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.1
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.07
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.06
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.06
PRK12608	380	transcription termination factor Rho; Provisional	97.04
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.04
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.03
CHL00195	489	ycf46 Ycf46; Provisional	97.03
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.02
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.01
PRK08116	268	hypothetical protein; Validated	97.0
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.0
smart00382	148	AAA ATPases associated with a variety of cellular	96.98
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.97
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.97
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	96.96
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.92
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.91
PHA00729	226	NTP-binding motif containing protein	96.88
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.87
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.87
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.86
PRK08118	167	topology modulation protein; Reviewed	96.86
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.83
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.79
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.78
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.72
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.66
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.58
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.57
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.56
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.56
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.55
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.55
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.51
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.51
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.49
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.48
PRK12377	248	putative replication protein; Provisional	96.44
PRK07261	171	topology modulation protein; Provisional	96.44
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.34
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.31
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.3
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.27
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.26
PRK06526	254	transposase; Provisional	96.25
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.24
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.24
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.23
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.22
PRK07952	244	DNA replication protein DnaC; Validated	96.19
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.19
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.18
PRK04132	846	replication factor C small subunit; Provisional	96.17
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.14
PRK08939	306	primosomal protein DnaI; Reviewed	96.11
PRK09183	259	transposase/IS protein; Provisional	96.1
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.09
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.05
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.04
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.04
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.02
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.01
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.97
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	95.91
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.91
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.9
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.9
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.9
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.89
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.87
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.85
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.85
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.84
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.84
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.82
PTZ00494	664	tuzin-like protein; Provisional	95.82
PRK09354	349	recA recombinase A; Provisional	95.82
CHL00095	821	clpC Clp protease ATP binding subunit	95.81
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.79
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.75
PRK05541	176	adenylylsulfate kinase; Provisional	95.7
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.68
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	95.68
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.68
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.66
PRK04296	190	thymidine kinase; Provisional	95.65
PRK10865	857	protein disaggregation chaperone; Provisional	95.64
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.64
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.62
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.6
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.59
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.59
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.56
PRK06696	223	uridine kinase; Validated	95.51
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.48
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	95.42
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.4
PRK06921	266	hypothetical protein; Provisional	95.37
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.35
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.3
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.3
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.21
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.19
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.19
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.18
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	95.17
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.15
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.14
PRK14974	336	cell division protein FtsY; Provisional	95.13
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.12
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.1
PRK13531	498	regulatory ATPase RavA; Provisional	95.09
PTZ00035	337	Rad51 protein; Provisional	95.07
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.05
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	95.03
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.02
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.01
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.99
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.99
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.97
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.94
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.9
PRK06067	234	flagellar accessory protein FlaH; Validated	94.89
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	94.85
PRK06835	329	DNA replication protein DnaC; Validated	94.83
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.83
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.81
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	94.76
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.76
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.71
PRK15455	644	PrkA family serine protein kinase; Provisional	94.69
PRK06547	172	hypothetical protein; Provisional	94.68
PRK10867	433	signal recognition particle protein; Provisional	94.57
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.57
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	94.55
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.54
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	94.53
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.53
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	94.52
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.49
PRK04328	249	hypothetical protein; Provisional	94.48
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	94.45
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.44
TIGR00959	428	ffh signal recognition particle protein. This mode	94.41
PRK13765	637	ATP-dependent protease Lon; Provisional	94.41
PRK07667	193	uridine kinase; Provisional	94.38
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.38
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.37
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.37
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	94.36
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	94.35
PRK05917	290	DNA polymerase III subunit delta'; Validated	94.29
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.29
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.26
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.22
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.21
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.15
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.12
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.04
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	94.01
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	93.98
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	93.95
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	93.94
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	93.93
PRK05439	311	pantothenate kinase; Provisional	93.91
PRK00889	175	adenylylsulfate kinase; Provisional	93.91
CHL00206	2281	ycf2 Ycf2; Provisional	93.88
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.86
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	93.83
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.76
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	93.75
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	93.72
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.72
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	93.72
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.7
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	93.69
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	93.69
PF13245	76	AAA_19: Part of AAA domain	93.69
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	93.66
PRK08233	182	hypothetical protein; Provisional	93.59
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	93.58
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.57
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	93.54
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.5
PRK05480	209	uridine/cytidine kinase; Provisional	93.5
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	93.45
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.42
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	93.42
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.4
PRK03839	180	putative kinase; Provisional	93.4
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	93.4
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	93.38
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	93.36
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.34
PTZ00301	210	uridine kinase; Provisional	93.33
PRK06762	166	hypothetical protein; Provisional	93.33
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	93.31
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	93.29
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	93.27
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	93.27
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.25
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.24
PRK06217	183	hypothetical protein; Validated	93.23
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	93.23
PRK00625	173	shikimate kinase; Provisional	93.19
PRK14529	223	adenylate kinase; Provisional	93.19
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	93.18
PF07726	131	AAA_3: ATPase family associated with various cellu	93.16
COG0488	530	Uup ATPase components of ABC transporters with dup	93.08
PTZ00088	229	adenylate kinase 1; Provisional	93.05
PRK04040	188	adenylate kinase; Provisional	93.04
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	93.01
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.01
PRK11823	446	DNA repair protein RadA; Provisional	92.97
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	92.94
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	92.93
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	92.92
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	92.91
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	92.88
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	92.87
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	92.86
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	92.86
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	92.84
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	92.83
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	92.77
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	92.76
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	92.75
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	92.65
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	92.63
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	92.62
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.6
PRK12678	672	transcription termination factor Rho; Provisional	92.6
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	92.59
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	92.58
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	92.54
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	92.53
COG0714	329	MoxR-like ATPases [General function prediction onl	92.49
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	92.43
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	92.42
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	92.38
PRK00131	175	aroK shikimate kinase; Reviewed	92.34
PRK07276	290	DNA polymerase III subunit delta'; Validated	92.32
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	92.27
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	92.25
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	92.24
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	92.2
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.19
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	92.17
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	92.17
PRK06851	367	hypothetical protein; Provisional	92.15
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	92.0
PTZ00185	574	ATPase alpha subunit; Provisional	91.99
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	91.99
COG4619	223	ABC-type uncharacterized transport system, ATPase	91.95
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	91.95
PRK09435	332	membrane ATPase/protein kinase; Provisional	91.93
PRK00409	782	recombination and DNA strand exchange inhibitor pr	91.93
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	91.92
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	91.92
PRK10416	318	signal recognition particle-docking protein FtsY;	91.92
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	91.87
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	91.87
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	91.83
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	91.83
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	91.81
PRK15453	290	phosphoribulokinase; Provisional	91.8
PRK14531	183	adenylate kinase; Provisional	91.77
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	91.77
PRK13947	171	shikimate kinase; Provisional	91.76
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	91.67
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	91.65
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	91.62
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	91.61
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	91.58
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	91.51
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	91.49
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	91.46
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	91.45
PRK13949	169	shikimate kinase; Provisional	91.44
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	91.32
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	91.3
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	91.21
PRK12339	197	2-phosphoglycerate kinase; Provisional	91.19
CHL00060	494	atpB ATP synthase CF1 beta subunit	91.18
PRK14530	215	adenylate kinase; Provisional	91.16
PRK08149	428	ATP synthase SpaL; Validated	91.16
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	91.15
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	91.1
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	91.08
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	91.05
PRK05057	172	aroK shikimate kinase I; Reviewed	91.01
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	90.98
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	90.93
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	90.87
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	90.85
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	90.85
PRK03846	198	adenylylsulfate kinase; Provisional	90.82
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	90.82
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	90.8
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	90.8
PRK06936	439	type III secretion system ATPase; Provisional	90.79
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	90.77
PRK00300	205	gmk guanylate kinase; Provisional	90.77
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	90.77
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	90.76
PRK13975	196	thymidylate kinase; Provisional	90.75
PRK13695	174	putative NTPase; Provisional	90.75
PHA02774	613	E1; Provisional	90.73
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	90.7
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	90.66
PRK09099	441	type III secretion system ATPase; Provisional	90.66
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	90.66
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	90.66
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	90.63
PRK05973	237	replicative DNA helicase; Provisional	90.61
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	90.59
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	90.58

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.9e-78  Score=736.96  Aligned_cols=595  Identities=29%  Similarity=0.450  Sum_probs=476.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhchhHHHHhhccccchHHHHHHHHHHHHHHHhhhchhhhhhhhhh--------------
Q 038494           35 YQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRA--------------  100 (1209)
Q Consensus        35 ~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~~~~~~~d~~~ed~ld~~~~~--------------  100 (1209)
                      ....+.+.++.+..|++.+..++.++++++++ +.....+..|...+++++|++  |++++.+...              
T Consensus        19 ~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~-~~~~~~~~~~~e~~~~~~~~~--e~~~~~~~v~~~~~~~~~~l~~~~   95 (889)
T KOG4658|consen   19 ESECLDGKDNYILELKENLKALQSALEDLDAK-RDDLERRVNWEEDVGDLVYLA--EDIIWLFLVEEIERKANDLLSTRS   95 (889)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHHHHHHhh-cchHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHhhhhH
Confidence            34556677889999999999999999999988 455788999999999999999  9998764210              


Q ss_pred             ---ccccccccc-CCcchhhhhHHHHHHHHHHHHhhhccCCccccccC-CCCCCccccccccccchhhHHHHHHHHHHHH
Q 038494          101 ---KKSCFKGFC-PNLISRYKLSKQAAKAAEAAASLVGKGNFSSVSHR-PAPESTEHMQAKDFEAFDSRMKLFQDVVEAL  175 (1209)
Q Consensus       101 ---~~~~~~~~~-~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gR~~~~~~l~~~L  175 (1209)
                         +.-|+.+++ ..+..-+.+++++-.+...++.+..++.+...... .+++.....|...... ||.+..++++.+.|
T Consensus        96 ~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L  174 (889)
T KOG4658|consen   96 VERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRL  174 (889)
T ss_pred             HHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHh
Confidence               011111222 12333344556666666666666655555443321 1111222222222333 99999999999999


Q ss_pred             hCCCceEEEEEcCCCChHHHHHHHHHHHHh-hcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCC--hHHHHHHH
Q 038494          176 RNDKLNIIGVHGMGGVGKTTLVKQIAKQVM-EDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDS--KPHRAKQL  252 (1209)
Q Consensus       176 ~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~--~~~~~~~l  252 (1209)
                      .+++..+++|+||||+||||||++++|+.. ++++|+.++||.||+.++...++.+|++.++........  .......+
T Consensus       175 ~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i  254 (889)
T KOG4658|consen  175 MEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKL  254 (889)
T ss_pred             ccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHH
Confidence            988779999999999999999999999998 899999999999999999999999999999875443332  24566677


Q ss_pred             HHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhhcccCCcceEEEcCCCCHHHHHHH
Q 038494          253 CQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQF  332 (1209)
Q Consensus       253 ~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~~~~~l~~L~~~e~~~l  332 (1209)
                      .+.|. +|||+||+||||+..+|+.++.++|...        .||||++|||++.|+...++....++++.|+++|||+|
T Consensus       255 ~~~L~-~krfllvLDDIW~~~dw~~I~~~~p~~~--------~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~L  325 (889)
T KOG4658|consen  255 LNLLE-GKRFLLVLDDIWEEVDWDKIGVPFPSRE--------NGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDL  325 (889)
T ss_pred             HHHhc-cCceEEEEecccccccHHhcCCCCCCcc--------CCeEEEEEeccHhhhhccccCCccccccccCccccHHH
Confidence            77776 7999999999999999999999999887        89999999999999987788899999999999999999


Q ss_pred             HHHHhCCC--CCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcC-ChhHHHHHHHHHhcCCCccccCccccceeeeEEec
Q 038494          333 FEKIVGNS--AKASAFQPLADEIVGKCGGLPVALSTVANALKNK-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSY  409 (1209)
Q Consensus       333 f~~~~~~~--~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy  409 (1209)
                      |++.++..  ...+..+++|++++++|+|+|||+.++|+.|+.+ +..+|+.+.+.+.+....+..++.+.+++++++||
T Consensus       326 F~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSy  405 (889)
T KOG4658|consen  326 FQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSY  405 (889)
T ss_pred             HHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccH
Confidence            99999844  3334589999999999999999999999999977 77899999999988866666777889999999999


Q ss_pred             ccCCchhHHHHHHHhcccCcCccccHHHHHHhh--hhhccccccHHHHHHHHHHHHHHHHhcccccCCC---CCCceEeh
Q 038494          410 NFLESDEAKSLFLLCTLFGEGTPIQVASLLRYG--KGLFKNVRTLENARNRVDALIDNLKASCLLLDGD---AEDEVKMH  484 (1209)
Q Consensus       410 ~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~--~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~---~~~~~~mH  484 (1209)
                      +.||++ +|.||+|||+||+||.|+++.|+.+|  +||+.+....+.+++.+.+++.+|++++|+....   +...|+||
T Consensus       406 d~L~~~-lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmH  484 (889)
T KOG4658|consen  406 DNLPEE-LKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMH  484 (889)
T ss_pred             hhhhHH-HHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEee
Confidence            999966 99999999999999999999999986  5799876667778889999999999999998764   45799999


Q ss_pred             hHHHHHHHHHhh-----ccceeeecCccchhhhHhhhhcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccC
Q 038494          485 DVIHVVAVSIAS-----EKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEIS  559 (1209)
Q Consensus       485 dlv~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~  559 (1209)
                      |+|||+|.++++     .++++ +..+.+..+.+....+..+|++++.++.+..++....+++|++|.+..+.+....++
T Consensus       485 DvvRe~al~ias~~~~~~e~~i-v~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is  563 (889)
T KOG4658|consen  485 DVVREMALWIASDFGKQEENQI-VSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEIS  563 (889)
T ss_pred             HHHHHHHHHHhccccccccceE-EECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcC
Confidence            999999999999     66633 333333344445556788999999999999999999999999999999864477888


Q ss_pred             hhhhcCCCCCcEEEecCc-ccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCC-CCccchhccCCCC
Q 038494          560 HLFFEGTEDLKVLSLSGI-HFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSD-IKQLPLEIGQLAQ  636 (1209)
Q Consensus       560 ~~~~~~l~~Lr~L~L~~~-~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~-~~~lp~~i~~L~~  636 (1209)
                      ..+|..++.||+|||++| .+.++|++|+.|.|||||+++++.++.+ .++++|+.|++|++..+. +..+|..+..|++
T Consensus       564 ~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~  643 (889)
T KOG4658|consen  564 GEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQS  643 (889)
T ss_pred             HHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhccc
Confidence            888999999999999976 5678999999999888888888776665 556666666666665552 2233333333555


Q ss_pred             CCEEeccC
Q 038494          637 LQLLDLSN  644 (1209)
Q Consensus       637 L~~L~l~~  644 (1209)
                      |++|.+..
T Consensus       644 Lr~L~l~~  651 (889)
T KOG4658|consen  644 LRVLRLPR  651 (889)
T ss_pred             ccEEEeec
Confidence            55555544

>PLN03210 Resistant to P

Probab=100.00  E-value=4.5e-57  Score=585.20  Aligned_cols=688  Identities=22%  Similarity=0.316  Sum_probs=454.8

Q ss_pred             cccchhhHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc---CCC----------
Q 038494          157 DFEAFDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV---TEN----------  221 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~---s~~----------  221 (1209)
                      +..++|||++.++++.+++.  .+++++|+||||||+||||||+++|++...  +|++.+|+..   +..          
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~--~F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSR--QFQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhh--cCCeEEEeeccccccchhhccccccc
Confidence            35679999999999999875  457899999999999999999999998764  5888877742   111          


Q ss_pred             -cC-HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEE
Q 038494          222 -PD-VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTI  299 (1209)
Q Consensus       222 -~~-~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~i  299 (1209)
                       +. ...++++++..+-.......   .....+.+.+. ++|+||||||||+..+|+.+.....+.+        +|++|
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~~~~---~~~~~~~~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~--------~GsrI  327 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKDIKI---YHLGAMEERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFG--------SGSRI  327 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCCccc---CCHHHHHHHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCC--------CCcEE
Confidence             01 12344444444322211111   11244566665 7999999999999999998876555444        79999


Q ss_pred             EEeccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCC-CCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhH
Q 038494          300 ILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSA-KASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPV  378 (1209)
Q Consensus       300 lvTtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~  378 (1209)
                      |||||++.++. ..+...+|+++.++++|||++|+++|+... ++.++++++++|+++|+|+||||+++|++|++++..+
T Consensus       328 IiTTrd~~vl~-~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~  406 (1153)
T PLN03210        328 IVITKDKHFLR-AHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKED  406 (1153)
T ss_pred             EEEeCcHHHHH-hcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHH
Confidence            99999999875 345668999999999999999999998543 4456789999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHHHH
Q 038494          379 WKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNR  458 (1209)
Q Consensus       379 w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~  458 (1209)
                      |+.++++++...       +..|..+|++||++|+++..|.||+++|+|+.+..++....+ ++.+...           
T Consensus       407 W~~~l~~L~~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~-l~~~~~~-----------  467 (1153)
T PLN03210        407 WMDMLPRLRNGL-------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLL-LANSDLD-----------  467 (1153)
T ss_pred             HHHHHHHHHhCc-------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHH-HHhcCCC-----------
Confidence            999999987643       356889999999999875489999999999987655432221 1222111           


Q ss_pred             HHHHHHHHHhcccccCCCCCCceEehhHHHHHHHHHhhccc-------eeeecCccchhhhHhhhhcCCeEEEEccCCCC
Q 038494          459 VDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKL-------MFSIPNVTNLKEEIEKIIQKGAIAISIPYGDI  531 (1209)
Q Consensus       459 ~~~~~~~L~~~~ll~~~~~~~~~~mHdlv~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~r~l~l~~~~~  531 (1209)
                      ....++.|++++|++..  .++|.|||++|++++.++.++.       +++... ....-........+++.+++....+
T Consensus       468 ~~~~l~~L~~ksLi~~~--~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~-di~~vl~~~~g~~~v~~i~l~~~~~  544 (1153)
T PLN03210        468 VNIGLKNLVDKSLIHVR--EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAK-DICDVLEDNTGTKKVLGITLDIDEI  544 (1153)
T ss_pred             chhChHHHHhcCCEEEc--CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHH-HHHHHHHhCcccceeeEEEeccCcc
Confidence            11247789999999765  3579999999999999987652       211110 0000011123346788888876655


Q ss_pred             ccCCC----cCCCCCccEEEeccCC-----CcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCccc
Q 038494          532 QELPE----RLECPQLKLLLLLANG-----DSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQL  602 (1209)
Q Consensus       532 ~~~~~----~~~~~~L~~L~l~~~~-----~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l  602 (1209)
                      ..+.-    ...+++|+.|.+..+.     .....+|..+..-...||+|.+.++.++.+|..+ ...+|+.|++.+|.+
T Consensus       545 ~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l  623 (1153)
T PLN03210        545 DELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKL  623 (1153)
T ss_pred             ceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCccc
Confidence            44322    2368899998886532     0123455544322356999999999888898877 578899999999988


Q ss_pred             CCc-ccccCCCCCCEEEccCC-CCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCC
Q 038494          603 EDV-AAIGQLKKLEILSFRYS-DIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGG  680 (1209)
Q Consensus       603 ~~l-~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~  680 (1209)
                      ..+ .++..+++|++|+++++ .+..+| .+..+++|++|++++|..+..+|.. ++++++|+.|++++|...       
T Consensus       624 ~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L~~c~~L-------  694 (1153)
T PLN03210        624 EKLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDMSRCENL-------  694 (1153)
T ss_pred             cccccccccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchh-hhccCCCCEEeCCCCCCc-------
Confidence            888 77888999999999886 466776 4788899999999998888888765 888999999998876310       


Q ss_pred             CccchhhhCCCCCCCEEEeeccCC-CCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHH
Q 038494          681 SNASLAELKGLSKLTTLEIQVQDA-QMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKM  759 (1209)
Q Consensus       681 ~~~~l~~L~~l~~L~~L~l~~~~~-~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~  759 (1209)
                       .. +..-..+++|+.|+++++.. ..+|.  ...+|+.                                         
T Consensus       695 -~~-Lp~~i~l~sL~~L~Lsgc~~L~~~p~--~~~nL~~-----------------------------------------  729 (1153)
T PLN03210        695 -EI-LPTGINLKSLYRLNLSGCSRLKSFPD--ISTNISW-----------------------------------------  729 (1153)
T ss_pred             -Cc-cCCcCCCCCCCEEeCCCCCCcccccc--ccCCcCe-----------------------------------------
Confidence             00 11111567777777766532 11111  0122332                                         


Q ss_pred             HhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCC---ccccccCCcccEEecccccccchhcc
Q 038494          760 LLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVG---RVHRKVFPLLESLSLYKLINLEAICH  836 (1209)
Q Consensus       760 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~  836 (1209)
                             |.+.+.. ..    .++....+++|++|.+.++.....+ ....   ......+++|+.|++++|+.+..++.
T Consensus       730 -------L~L~~n~-i~----~lP~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~  796 (1153)
T PLN03210        730 -------LDLDETA-IE----EFPSNLRLENLDELILCEMKSEKLW-ERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS  796 (1153)
T ss_pred             -------eecCCCc-cc----cccccccccccccccccccchhhcc-ccccccchhhhhccccchheeCCCCCCccccCh
Confidence                   2222211 11    1111123445555555443321100 0000   00112245677777777665555433


Q ss_pred             cccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCcc
Q 038494          837 SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVG  916 (1209)
Q Consensus       837 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  916 (1209)
                      .    .+.+++|+.|+|++|++++.+|...   ++++|+.|++++|..+..++.                          
T Consensus       797 s----i~~L~~L~~L~Ls~C~~L~~LP~~~---~L~sL~~L~Ls~c~~L~~~p~--------------------------  843 (1153)
T PLN03210        797 S----IQNLHKLEHLEIENCINLETLPTGI---NLESLESLDLSGCSRLRTFPD--------------------------  843 (1153)
T ss_pred             h----hhCCCCCCEEECCCCCCcCeeCCCC---CccccCEEECCCCCccccccc--------------------------
Confidence            2    1456777777777777777766521   567777777777766554321                          


Q ss_pred             CccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCcccc
Q 038494          917 IPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTF  993 (1209)
Q Consensus       917 ~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l  993 (1209)
                      .+.+|+.|++.++ .++.+|.        .+..+++|+.|++++|+++..++...  ..+++|+.+++++|++|+.+
T Consensus       844 ~~~nL~~L~Ls~n-~i~~iP~--------si~~l~~L~~L~L~~C~~L~~l~~~~--~~L~~L~~L~l~~C~~L~~~  909 (1153)
T PLN03210        844 ISTNISDLNLSRT-GIEEVPW--------WIEKFSNLSFLDMNGCNNLQRVSLNI--SKLKHLETVDFSDCGALTEA  909 (1153)
T ss_pred             cccccCEeECCCC-CCccChH--------HHhcCCCCCEEECCCCCCcCccCccc--ccccCCCeeecCCCcccccc
Confidence            2245666666654 2332222        23456777777777777777664432  24667777777777777643

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=2.9e-38  Score=352.16  Aligned_cols=274  Identities=32%  Similarity=0.559  Sum_probs=220.3

Q ss_pred             HHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-
Q 038494          164 RMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-  240 (1209)
Q Consensus       164 R~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-  240 (1209)
                      |+.++++|.++|.+  ++.++|+|+||||+||||||++++++...+.+|+.++|+.++...+...+++.|++.++.... 
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            78999999999997  788999999999999999999999997777889999999999999999999999999988743 


Q ss_pred             --CCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhhcccCCcceE
Q 038494          241 --LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKI  318 (1209)
Q Consensus       241 --~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~~~  318 (1209)
                        ...+.......+.+.+. ++++||||||||+...|+.+...++...        .|++||||||+..++.........
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~--------~~~kilvTTR~~~v~~~~~~~~~~  151 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFS--------SGSKILVTTRDRSVAGSLGGTDKV  151 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHH--------SS-EEEEEESCGGGGTTHHSCEEE
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccc--------cccccccccccccccccccccccc
Confidence              23444666777777776 6799999999999999988877766555        799999999999887543333789


Q ss_pred             EEcCCCCHHHHHHHHHHHhCCCC--CCCcchHHHHHHHHHhCCChhHHHHHHHHHhcC-ChhHHHHHHHHHhcCCCcccc
Q 038494          319 FLIEVLSKEEALQFFEKIVGNSA--KASAFQPLADEIVGKCGGLPVALSTVANALKNK-KLPVWKDALTQLRNSNPREIH  395 (1209)
Q Consensus       319 ~~l~~L~~~e~~~lf~~~~~~~~--~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~  395 (1209)
                      +++++|+.+||++||.+.++...  ..+..++.+++|+++|+|+||||+++|++|+.+ +..+|+.+++++...... ..
T Consensus       152 ~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~  230 (287)
T PF00931_consen  152 IELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SR  230 (287)
T ss_dssp             EECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SS
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cc
Confidence            99999999999999999997433  456677899999999999999999999999644 778999999988766532 22


Q ss_pred             CccccceeeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhh--hhccc
Q 038494          396 GMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGK--GLFKN  448 (1209)
Q Consensus       396 ~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~--g~i~~  448 (1209)
                      +....+..++.+||+.||++ +|+||.|||+||+++.|+++.++++|.  |++..
T Consensus       231 ~~~~~~~~~l~~s~~~L~~~-~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  231 DYDRSVFSALELSYDSLPDE-LRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             GSCHHHHHHHHHHHHSSHTC-CHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             cccccccccceechhcCCcc-HHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            35677899999999999997 999999999999999999999999985  67653

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.

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

Probab=99.96  E-value=4.1e-28  Score=317.34  Aligned_cols=511  Identities=17%  Similarity=0.144  Sum_probs=294.5

Q ss_pred             CCeEEEEccCCCCccCC-Cc-CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-cccccccCCCCCcEE
Q 038494          519 KGAIAISIPYGDIQELP-ER-LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINLQTL  595 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~-~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~l~~L~~L  595 (1209)
                      .+++.+.+.++.+.... .. ..+++|++|++++|. ....+|..++..+++||+|+|++|.+. .+|.  +.+.+|++|
T Consensus        69 ~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~-~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L  145 (968)
T PLN00113         69 SRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQ-LSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETL  145 (968)
T ss_pred             CcEEEEEecCCCccccCChHHhCCCCCCEEECCCCc-cCCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEE
Confidence            47899999988766433 22 378999999999885 334688888889999999999999987 4553  578999999


Q ss_pred             eccCcccCCc--ccccCCCCCCEEEccCCCCC-ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCC
Q 038494          596 CLDWCQLEDV--AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFP  672 (1209)
Q Consensus       596 ~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  672 (1209)
                      ++++|.+...  ..++++++|++|++++|.+. .+|..++++++|++|++++|.....+| ..++++++|++|++++|..
T Consensus       146 ~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~L~~n~l  224 (968)
T PLN00113        146 DLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIP-RELGQMKSLKWIYLGYNNL  224 (968)
T ss_pred             ECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCC-hHHcCcCCccEEECcCCcc
Confidence            9999998644  67999999999999999876 788899999999999999954433444 4589999999999987642


Q ss_pred             ccccccCCCccchhhhCCCCCCCEEEeeccCCC-CCCccc-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcch
Q 038494          673 QWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ-MLPQDL-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVST  750 (1209)
Q Consensus       673 ~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~  750 (1209)
                      .        ......+..+++|+.|+++.+... .+|..+ ...+|+.|.+..+...                     . 
T Consensus       225 ~--------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~---------------------~-  274 (968)
T PLN00113        225 S--------GEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLS---------------------G-  274 (968)
T ss_pred             C--------CcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeee---------------------c-
Confidence            1        123445788899999999887654 233322 3445555544321100                     0 


Q ss_pred             hhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccc
Q 038494          751 LLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLIN  830 (1209)
Q Consensus       751 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~  830 (1209)
                       ..+..+ ..+++|+.|++.++......+.   .+..+++|+.|++.++.....++.     ....+++|+.|+++++.-
T Consensus       275 -~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~---~~~~l~~L~~L~l~~n~~~~~~~~-----~~~~l~~L~~L~L~~n~l  344 (968)
T PLN00113        275 -PIPPSI-FSLQKLISLDLSDNSLSGEIPE---LVIQLQNLEILHLFSNNFTGKIPV-----ALTSLPRLQVLQLWSNKF  344 (968)
T ss_pred             -cCchhH-hhccCcCEEECcCCeeccCCCh---hHcCCCCCcEEECCCCccCCcCCh-----hHhcCCCCCEEECcCCCC
Confidence             001111 1234566666654432222211   134566677777766543221110     123456666776666432


Q ss_pred             cchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCC
Q 038494          831 LEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDD  910 (1209)
Q Consensus       831 l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~  910 (1209)
                      ...++.    ..+.+++|+.|++++|.-...+|.  .+..+++|+.|++++|.-...+                      
T Consensus       345 ~~~~p~----~l~~~~~L~~L~Ls~n~l~~~~p~--~~~~~~~L~~L~l~~n~l~~~~----------------------  396 (968)
T PLN00113        345 SGEIPK----NLGKHNNLTVLDLSTNNLTGEIPE--GLCSSGNLFKLILFSNSLEGEI----------------------  396 (968)
T ss_pred             cCcCCh----HHhCCCCCcEEECCCCeeEeeCCh--hHhCcCCCCEEECcCCEecccC----------------------
Confidence            111110    113456666676666533323332  3344566666666655321111                      


Q ss_pred             CCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCc
Q 038494          911 TAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNM  990 (1209)
Q Consensus       911 ~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L  990 (1209)
                       +..+..+++|+.|++.+|.....++.        ....+++|+.|+++++.-...++..  ...+++|+.|++++|.-.
T Consensus       397 -p~~~~~~~~L~~L~L~~n~l~~~~p~--------~~~~l~~L~~L~Ls~N~l~~~~~~~--~~~l~~L~~L~L~~n~~~  465 (968)
T PLN00113        397 -PKSLGACRSLRRVRLQDNSFSGELPS--------EFTKLPLVYFLDISNNNLQGRINSR--KWDMPSLQMLSLARNKFF  465 (968)
T ss_pred             -CHHHhCCCCCCEEECcCCEeeeECCh--------hHhcCCCCCEEECcCCcccCccChh--hccCCCCcEEECcCceee
Confidence             11234456677777776653322211        2234566666666665432222111  123566777777776544


Q ss_pred             cccccCccccCCCcccccccccccccccccccccchhhhh--hhhhhccccccceEEeeccCCceeeccCCCCCcccCCC
Q 038494          991 KTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQK--YYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNN 1068 (1209)
Q Consensus       991 ~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~--~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~ 1068 (1209)
                      ..         +|...        ..++|+.|++++|...  ....+..+++|+.|++++|.-...++    ..+..+++
T Consensus       466 ~~---------~p~~~--------~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~p----~~~~~l~~  524 (968)
T PLN00113        466 GG---------LPDSF--------GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIP----DELSSCKK  524 (968)
T ss_pred             ee---------cCccc--------ccccceEEECcCCccCCccChhhhhhhccCEEECcCCcceeeCC----hHHcCccC
Confidence            32         22111        1355666666666542  12233455666666666643222221    12445566


Q ss_pred             ccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccc
Q 038494         1069 LARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCN 1145 (1209)
Q Consensus      1069 L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~ 1145 (1209)
                      |++|++++|. +....|.. +.++++|+.|++++|.-...+|..          +..+++|+.|++++|+-...+|.
T Consensus       525 L~~L~Ls~N~-l~~~~p~~-~~~l~~L~~L~Ls~N~l~~~~p~~----------l~~l~~L~~l~ls~N~l~~~~p~  589 (968)
T PLN00113        525 LVSLDLSHNQ-LSGQIPAS-FSEMPVLSQLDLSQNQLSGEIPKN----------LGNVESLVQVNISHNHLHGSLPS  589 (968)
T ss_pred             CCEEECCCCc-ccccCChh-HhCcccCCEEECCCCcccccCChh----------HhcCcccCEEeccCCcceeeCCC
Confidence            6666666543 33323433 456666666666666622233221          12455666666666554444543

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

Probab=99.95  E-value=8.1e-27  Score=305.10  Aligned_cols=516  Identities=15%  Similarity=0.071  Sum_probs=355.4

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-ccccccc-CCCCCcEEeccCcccCCcccccCCCCCCEEE
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLG-HLINLQTLCLDWCQLEDVAAIGQLKKLEILS  618 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~~i~-~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~  618 (1209)
                      .+++.|+++++.  +.......|..+++|++|+|++|.+. .+|..+. .+.+|++|++++|.+......+.+++|++|+
T Consensus        69 ~~v~~L~L~~~~--i~~~~~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~  146 (968)
T PLN00113         69 SRVVSIDLSGKN--ISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLD  146 (968)
T ss_pred             CcEEEEEecCCC--ccccCChHHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCccccCCCCEEE
Confidence            578999998874  33334556789999999999999997 7888665 9999999999999987663346799999999


Q ss_pred             ccCCCCC-ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEE
Q 038494          619 FRYSDIK-QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL  697 (1209)
Q Consensus       619 l~~~~~~-~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L  697 (1209)
                      +++|.+. .+|..++++++|++|++++|.....+| ..++++++|++|++++|...        ......+.++++|+.|
T Consensus       147 Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p-~~~~~l~~L~~L~L~~n~l~--------~~~p~~l~~l~~L~~L  217 (968)
T PLN00113        147 LSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIP-NSLTNLTSLEFLTLASNQLV--------GQIPRELGQMKSLKWI  217 (968)
T ss_pred             CcCCcccccCChHHhcCCCCCEEECccCcccccCC-hhhhhCcCCCeeeccCCCCc--------CcCChHHcCcCCccEE
Confidence            9999887 789899999999999999954334444 45899999999999887421        1234567889999999


Q ss_pred             EeeccCCC-CCCccc-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeecccccc
Q 038494          698 EIQVQDAQ-MLPQDL-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGV  775 (1209)
Q Consensus       698 ~l~~~~~~-~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~  775 (1209)
                      +++.+... .+|..+ .+.+|+.|.+..+....                       ..+. ....+++|+.|.+..+...
T Consensus       218 ~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~-----------------------~~p~-~l~~l~~L~~L~L~~n~l~  273 (968)
T PLN00113        218 YLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTG-----------------------PIPS-SLGNLKNLQYLFLYQNKLS  273 (968)
T ss_pred             ECcCCccCCcCChhHhcCCCCCEEECcCceecc-----------------------ccCh-hHhCCCCCCEEECcCCeee
Confidence            99988765 344332 45666666654221100                       0111 1122456777777654332


Q ss_pred             ccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEec
Q 038494          776 QNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVES  855 (1209)
Q Consensus       776 ~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~  855 (1209)
                      ...+   ..+..+++|++|++++|.....++.     ....+++|+.|++.++. +.......   ...+++|+.|++++
T Consensus       274 ~~~p---~~l~~l~~L~~L~Ls~n~l~~~~p~-----~~~~l~~L~~L~l~~n~-~~~~~~~~---~~~l~~L~~L~L~~  341 (968)
T PLN00113        274 GPIP---PSIFSLQKLISLDLSDNSLSGEIPE-----LVIQLQNLEILHLFSNN-FTGKIPVA---LTSLPRLQVLQLWS  341 (968)
T ss_pred             ccCc---hhHhhccCcCEEECcCCeeccCCCh-----hHcCCCCCcEEECCCCc-cCCcCChh---HhcCCCCCEEECcC
Confidence            2222   2246688999999988753222211     12457889999998743 33221111   24588999999999


Q ss_pred             CCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccchhhh
Q 038494          856 CDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEI  935 (1209)
Q Consensus       856 c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~  935 (1209)
                      |.-...+|.  .+..+++|+.|++++|.-...++                       ..+...++|+.|++++|.....+
T Consensus       342 n~l~~~~p~--~l~~~~~L~~L~Ls~n~l~~~~p-----------------------~~~~~~~~L~~L~l~~n~l~~~~  396 (968)
T PLN00113        342 NKFSGEIPK--NLGKHNNLTVLDLSTNNLTGEIP-----------------------EGLCSSGNLFKLILFSNSLEGEI  396 (968)
T ss_pred             CCCcCcCCh--HHhCCCCCcEEECCCCeeEeeCC-----------------------hhHhCcCCCCEEECcCCEecccC
Confidence            854444543  55678899999998774221111                       12345578899999988654333


Q ss_pred             hccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcccccccccccc
Q 038494          936 VGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGE 1015 (1209)
Q Consensus       936 ~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~ 1015 (1209)
                      +.        ....+++|+.|++++|.-...++.  ....+++|+.|++++|.-..         ..|....       .
T Consensus       397 p~--------~~~~~~~L~~L~L~~n~l~~~~p~--~~~~l~~L~~L~Ls~N~l~~---------~~~~~~~-------~  450 (968)
T PLN00113        397 PK--------SLGACRSLRRVRLQDNSFSGELPS--EFTKLPLVYFLDISNNNLQG---------RINSRKW-------D  450 (968)
T ss_pred             CH--------HHhCCCCCCEEECcCCEeeeECCh--hHhcCCCCCEEECcCCcccC---------ccChhhc-------c
Confidence            22        334688999999998874443322  22468899999999875332         1222211       4


Q ss_pred             cccccccccchhhhhh-hhhhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhcc
Q 038494         1016 LHHWEGNNLNSIMQKY-YKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNN 1094 (1209)
Q Consensus      1016 l~~L~~L~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~ 1094 (1209)
                      +++|+.|++++|.... .+.....++|+.|++++|.....++    ..+..+++|+.|++++|. +...+|.. +.++++
T Consensus       451 l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~----~~~~~l~~L~~L~Ls~N~-l~~~~p~~-~~~l~~  524 (968)
T PLN00113        451 MPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVP----RKLGSLSELMQLKLSENK-LSGEIPDE-LSSCKK  524 (968)
T ss_pred             CCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccC----hhhhhhhccCEEECcCCc-ceeeCChH-HcCccC
Confidence            7899999999987542 2334466899999999865333322    236678999999999864 44445654 678999


Q ss_pred             CcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCCCccccccc
Q 038494         1095 LRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFISN 1173 (1209)
Q Consensus      1095 L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~~l~~l~~~ 1173 (1209)
                      |+.|++++|. ++...+         ..+..+++|+.|++++|+-...+|.   .+..+++|+.|++++|+-...+|..
T Consensus       525 L~~L~Ls~N~-l~~~~p---------~~~~~l~~L~~L~Ls~N~l~~~~p~---~l~~l~~L~~l~ls~N~l~~~~p~~  590 (968)
T PLN00113        525 LVSLDLSHNQ-LSGQIP---------ASFSEMPVLSQLDLSQNQLSGEIPK---NLGNVESLVQVNISHNHLHGSLPST  590 (968)
T ss_pred             CCEEECCCCc-ccccCC---------hhHhCcccCCEEECCCCcccccCCh---hHhcCcccCEEeccCCcceeeCCCc
Confidence            9999999998 543321         2344789999999999765556554   7888999999999999877778754

>PLN03210 Resistant to P

Probab=99.84  E-value=4.7e-20  Score=240.40  Aligned_cols=380  Identities=19%  Similarity=0.261  Sum_probs=233.0

Q ss_pred             cccChhhhcCCCCCcEEEecCcccc-------cccccccCCC-CCcEEeccCcccCCcccccCCCCCCEEEccCCCCCcc
Q 038494          556 LEISHLFFEGTEDLKVLSLSGIHFS-------SLSSSLGHLI-NLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQL  627 (1209)
Q Consensus       556 ~~~~~~~~~~l~~Lr~L~L~~~~i~-------~lp~~i~~l~-~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~l  627 (1209)
                      ..+....|.++++|++|.+..+...       .+|..+..++ +|++|.+.++.++.+++.....+|+.|+++++.+..+
T Consensus       547 ~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L  626 (1153)
T PLN03210        547 LHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKL  626 (1153)
T ss_pred             eeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCcccccc
Confidence            4456677899999999998765321       4666666654 5888888888888774434678888888888888888


Q ss_pred             chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCC
Q 038494          628 PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       628 p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                      |.++..+++|+.|++++|..+..+|.  ++.+++|++|++.+|.                     .|.            
T Consensus       627 ~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~---------------------~L~------------  671 (1153)
T PLN03210        627 WDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCS---------------------SLV------------  671 (1153)
T ss_pred             ccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCC---------------------Ccc------------
Confidence            88888888888888888766666552  5666666666654431                     000            


Q ss_pred             CcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCC
Q 038494          708 PQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEG  787 (1209)
Q Consensus       708 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~  787 (1209)
                                                                                           .++   ..++.
T Consensus       672 ---------------------------------------------------------------------~lp---~si~~  679 (1153)
T PLN03210        672 ---------------------------------------------------------------------ELP---SSIQY  679 (1153)
T ss_pred             ---------------------------------------------------------------------ccc---hhhhc
Confidence                                                                                 000   01245


Q ss_pred             ccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHH
Q 038494          788 FPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSI  867 (1209)
Q Consensus       788 l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~  867 (1209)
                      +++|+.|.+++|..++.++..      ..+++|+.|.+++|..+..++       ...++|+.|+++++. ++.+|..  
T Consensus       680 L~~L~~L~L~~c~~L~~Lp~~------i~l~sL~~L~Lsgc~~L~~~p-------~~~~nL~~L~L~~n~-i~~lP~~--  743 (1153)
T PLN03210        680 LNKLEDLDMSRCENLEILPTG------INLKSLYRLNLSGCSRLKSFP-------DISTNISWLDLDETA-IEEFPSN--  743 (1153)
T ss_pred             cCCCCEEeCCCCCCcCccCCc------CCCCCCCEEeCCCCCCccccc-------cccCCcCeeecCCCc-ccccccc--
Confidence            677888888888776655321      136777777777776655432       124567777776653 4555431  


Q ss_pred             HhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccc
Q 038494          868 ARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENR  947 (1209)
Q Consensus       868 ~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~  947 (1209)
                       -.+++|+.|.+.+|....-..                                      ....+..          ...
T Consensus       744 -~~l~~L~~L~l~~~~~~~l~~--------------------------------------~~~~l~~----------~~~  774 (1153)
T PLN03210        744 -LRLENLDELILCEMKSEKLWE--------------------------------------RVQPLTP----------LMT  774 (1153)
T ss_pred             -ccccccccccccccchhhccc--------------------------------------cccccch----------hhh
Confidence             135555555555442110000                                      0000000          001


Q ss_pred             cccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcccccccccccccccccccccchh
Q 038494          948 IAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSI 1027 (1209)
Q Consensus       948 ~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~ 1027 (1209)
                      ..+++|+.|+|++|+.+..++..  ...+++|+.|++++|.+++.+|.+                               
T Consensus       775 ~~~~sL~~L~Ls~n~~l~~lP~s--i~~L~~L~~L~Ls~C~~L~~LP~~-------------------------------  821 (1153)
T PLN03210        775 MLSPSLTRLFLSDIPSLVELPSS--IQNLHKLEHLEIENCINLETLPTG-------------------------------  821 (1153)
T ss_pred             hccccchheeCCCCCCccccChh--hhCCCCCCEEECCCCCCcCeeCCC-------------------------------
Confidence            12467777777777776666433  235677777777777777633221                               


Q ss_pred             hhhhhhhhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchh
Q 038494         1028 MQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLE 1107 (1209)
Q Consensus      1028 ~~~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~ 1107 (1209)
                              ..+++|++|++++|.++..++.       ..++|+.|+++++ .+.. +|.+ +..+++|+.|++++|++++
T Consensus       822 --------~~L~sL~~L~Ls~c~~L~~~p~-------~~~nL~~L~Ls~n-~i~~-iP~s-i~~l~~L~~L~L~~C~~L~  883 (1153)
T PLN03210        822 --------INLESLESLDLSGCSRLRTFPD-------ISTNISDLNLSRT-GIEE-VPWW-IEKFSNLSFLDMNGCNNLQ  883 (1153)
T ss_pred             --------CCccccCEEECCCCCccccccc-------cccccCEeECCCC-CCcc-ChHH-HhcCCCCCEEECCCCCCcC
Confidence                    1245566667777776665432       1367888888764 5554 5655 5678888888888888888


Q ss_pred             hhhhcccccccccCCCcccccccccccccccccccccccCCC-----------ccCCCCccEEeeecCCCccc
Q 038494         1108 EVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGN-----------IIELPELRYLTIENCPDMET 1169 (1209)
Q Consensus      1108 ~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~-----------l~~l~~L~~L~i~~C~~l~~ 1169 (1209)
                      .++....          .+++|+.|.+.+|++|+.++. ...           ...+|+...+.+.+|.++..
T Consensus       884 ~l~~~~~----------~L~~L~~L~l~~C~~L~~~~l-~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~  945 (1153)
T PLN03210        884 RVSLNIS----------KLKHLETVDFSDCGALTEASW-NGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQ  945 (1153)
T ss_pred             ccCcccc----------cccCCCeeecCCCcccccccC-CCCchhhhhhcccccccCCchhccccccccCCCc
Confidence            8765332          577888888888888876542 110           12344445566677766643

syringae 6; Provisional

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

Probab=99.82  E-value=2.2e-20  Score=203.32  Aligned_cols=154  Identities=14%  Similarity=0.174  Sum_probs=115.1

Q ss_pred             hhhcCCeEEEEccCCCCccCCCc----CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCC
Q 038494          515 KIIQKGAIAISIPYGDIQELPER----LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI  590 (1209)
Q Consensus       515 ~~~~~~~r~l~l~~~~~~~~~~~----~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~  590 (1209)
                      ..++...+-+..++..++.+...    .-.+.-++|++++|  ...++...+|.++++|+.+.+.+|.++.+|...+...
T Consensus        48 a~c~c~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnN--kl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sg  125 (873)
T KOG4194|consen   48 ATCPCNTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNN--KLSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESG  125 (873)
T ss_pred             CcCCCCceeeecCccccccccccccCCcCccceeeeecccc--ccccCcHHHHhcCCcceeeeeccchhhhccccccccc
Confidence            44556666666666666554221    13456678888888  5677777778889999999999999988888777777


Q ss_pred             CCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEEC
Q 038494          591 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYM  667 (1209)
Q Consensus       591 ~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l  667 (1209)
                      ||+.|+|.+|.|..+  ..+.-++.|+.||++.|.++.+|. .+..=.++++|++++ +.++.+..+.|..+.+|-+|.+
T Consensus       126 hl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~-N~It~l~~~~F~~lnsL~tlkL  204 (873)
T KOG4194|consen  126 HLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLAS-NRITTLETGHFDSLNSLLTLKL  204 (873)
T ss_pred             ceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecc-ccccccccccccccchheeeec
Confidence            899999999988888  678888888899998888887764 355556788888888 6777776666777777777777


Q ss_pred             CCCC
Q 038494          668 GDSF  671 (1209)
Q Consensus       668 ~~~~  671 (1209)
                      +.|.
T Consensus       205 srNr  208 (873)
T KOG4194|consen  205 SRNR  208 (873)
T ss_pred             ccCc
Confidence            6654

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

Probab=99.72  E-value=3.3e-20  Score=193.44  Aligned_cols=110  Identities=20%  Similarity=0.234  Sum_probs=69.8

Q ss_pred             hhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcc
Q 038494         1034 EMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLE 1113 (1209)
Q Consensus      1034 ~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~ 1113 (1209)
                      .+..+++|..|++++ +-|-+++.+    ++.+..|+.|+++.. ++.. .|.. ..-+..|+.+-++++. +..+++. 
T Consensus       430 ~l~~l~kLt~L~L~N-N~Ln~LP~e----~~~lv~Lq~LnlS~N-rFr~-lP~~-~y~lq~lEtllas~nq-i~~vd~~-  499 (565)
T KOG0472|consen  430 ELSQLQKLTFLDLSN-NLLNDLPEE----MGSLVRLQTLNLSFN-RFRM-LPEC-LYELQTLETLLASNNQ-IGSVDPS-  499 (565)
T ss_pred             HHHhhhcceeeeccc-chhhhcchh----hhhhhhhheeccccc-cccc-chHH-HhhHHHHHHHHhcccc-ccccChH-
Confidence            345677777777776 445555433    445566777777653 4443 3432 1223334444444443 6655432 


Q ss_pred             cccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCC
Q 038494         1114 ELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCP 1165 (1209)
Q Consensus      1114 ~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~ 1165 (1209)
                              ......+|..|++.+ +.++++|.   .++++++|+.|.+.|.|
T Consensus       500 --------~l~nm~nL~tLDL~n-Ndlq~IPp---~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  500 --------GLKNMRNLTTLDLQN-NDLQQIPP---ILGNMTNLRHLELDGNP  539 (565)
T ss_pred             --------HhhhhhhcceeccCC-CchhhCCh---hhccccceeEEEecCCc
Confidence                    334678899999987 78888887   78999999999999865

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

Probab=99.72  E-value=1.3e-19  Score=198.23  Aligned_cols=184  Identities=20%  Similarity=0.286  Sum_probs=147.4

Q ss_pred             hcCCeEEEEccCCCCccCCCc-CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEE
Q 038494          517 IQKGAIAISIPYGDIQELPER-LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTL  595 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L  595 (1209)
                      ..+++.|+++..|.+..+... ..++.||++.+..|......+|+.+| .++.|.+||||.|.++..|..+..-+++-+|
T Consensus        53 ~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~iVL  131 (1255)
T KOG0444|consen   53 RLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNSIVL  131 (1255)
T ss_pred             HHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCcEEE
Confidence            456888999998887766544 37899999999988777788998886 6999999999999999999999999999999


Q ss_pred             eccCcccCCc--ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCc
Q 038494          596 CLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQ  673 (1209)
Q Consensus       596 ~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~  673 (1209)
                      +|++|.|..+  +-+-+|..|-+||+++|++..+|+.+..|.+|++|.+++ +.+..+....+..+++|++|.+++... 
T Consensus       132 NLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~-NPL~hfQLrQLPsmtsL~vLhms~TqR-  209 (1255)
T KOG0444|consen  132 NLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSN-NPLNHFQLRQLPSMTSLSVLHMSNTQR-  209 (1255)
T ss_pred             EcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCC-ChhhHHHHhcCccchhhhhhhcccccc-
Confidence            9999999988  557799999999999999999999999999999999998 555555444455667777887776432 


Q ss_pred             cccccCCCccchhhhCCCCCCCEEEeeccCCCCCCc
Q 038494          674 WDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQ  709 (1209)
Q Consensus       674 ~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~  709 (1209)
                            ........+..+.||+.++++.++....|.
T Consensus       210 ------Tl~N~Ptsld~l~NL~dvDlS~N~Lp~vPe  239 (1255)
T KOG0444|consen  210 ------TLDNIPTSLDDLHNLRDVDLSENNLPIVPE  239 (1255)
T ss_pred             ------hhhcCCCchhhhhhhhhccccccCCCcchH
Confidence                  222234456777788888887776654443

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

Probab=99.70  E-value=1.7e-20  Score=195.48  Aligned_cols=174  Identities=28%  Similarity=0.377  Sum_probs=128.8

Q ss_pred             eEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccC
Q 038494          521 AIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       521 ~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~  599 (1209)
                      ...+.+..|++..+.+.. .+..+.+|.+++|  ....+|+.+ +.+..+..|+.+.+.+..+|+.++.+..|+.|+.++
T Consensus        47 l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n--~l~~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~  123 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLACLTVLNVHDN--KLSQLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSS  123 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccceeEEEeccc--hhhhCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccc
Confidence            344556666666554443 6777788888777  456666654 677888888888888888888888888888888888


Q ss_pred             cccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          600 CQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       600 ~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      |.+.++ ++++.+..|..|+..+|++.++|.++.++.+|..|++.+ +.++..|++.+. ++.|++|+...+.       
T Consensus       124 n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~-n~l~~l~~~~i~-m~~L~~ld~~~N~-------  194 (565)
T KOG0472|consen  124 NELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEG-NKLKALPENHIA-MKRLKHLDCNSNL-------  194 (565)
T ss_pred             cceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccc-cchhhCCHHHHH-HHHHHhcccchhh-------
Confidence            888877 888888888888888888888888888888888888888 677778777554 8888888765442       


Q ss_pred             CCCccchhhhCCCCCCCEEEeeccCCCCCC
Q 038494          679 GGSNASLAELKGLSKLTTLEIQVQDAQMLP  708 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~  708 (1209)
                        ......+++.+.+|..|++..+++..+|
T Consensus       195 --L~tlP~~lg~l~~L~~LyL~~Nki~~lP  222 (565)
T KOG0472|consen  195 --LETLPPELGGLESLELLYLRRNKIRFLP  222 (565)
T ss_pred             --hhcCChhhcchhhhHHHHhhhcccccCC
Confidence              2233456677777777777776665554

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

Probab=99.70  E-value=4.7e-19  Score=204.11  Aligned_cols=468  Identities=19%  Similarity=0.186  Sum_probs=249.4

Q ss_pred             cCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc
Q 038494          527 PYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV  605 (1209)
Q Consensus       527 ~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l  605 (1209)
                      ++...+-+|... ....+..|++..|  .....|-.+..+.-+|+.||+++|.+..+|..|..+.+|+.|+++.|.++..
T Consensus         6 s~~~l~~ip~~i~~~~~~~~ln~~~N--~~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~v   83 (1081)
T KOG0618|consen    6 SDEQLELIPEQILNNEALQILNLRRN--SLLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSV   83 (1081)
T ss_pred             ccccCcccchhhccHHHHHhhhcccc--ccccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhC
Confidence            334444444432 2223556666555  2333344445555568888888888888888888888888888888888777


Q ss_pred             -ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccC-----
Q 038494          606 -AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEG-----  679 (1209)
Q Consensus       606 -~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~-----  679 (1209)
                       .+++++++|++|.|.+|.+..+|.++..+.+|+.|+++. +.+..+|.- +..++.+..+..++|. .....+.     
T Consensus        84 p~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~-N~f~~~Pl~-i~~lt~~~~~~~s~N~-~~~~lg~~~ik~  160 (1081)
T KOG0618|consen   84 PSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSF-NHFGPIPLV-IEVLTAEEELAASNNE-KIQRLGQTSIKK  160 (1081)
T ss_pred             chhhhhhhcchhheeccchhhcCchhHHhhhcccccccch-hccCCCchh-HHhhhHHHHHhhhcch-hhhhhccccchh
Confidence             777888888888888888888888888888888888888 566666643 6666666666665541 0000000     


Q ss_pred             -------CCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhh
Q 038494          680 -------GSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLL  752 (1209)
Q Consensus       680 -------~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~  752 (1209)
                             -....+.++..+.+  .|++..+... .-.-....+|+.+...           ...+..+.+.         
T Consensus       161 ~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~-~~dls~~~~l~~l~c~-----------rn~ls~l~~~---------  217 (1081)
T KOG0618|consen  161 LDLRLNVLGGSFLIDIYNLTH--QLDLRYNEME-VLDLSNLANLEVLHCE-----------RNQLSELEIS---------  217 (1081)
T ss_pred             hhhhhhhcccchhcchhhhhe--eeecccchhh-hhhhhhccchhhhhhh-----------hcccceEEec---------
Confidence                   00000111111111  2232222221 0000011111111000           0000000000         


Q ss_pred             hHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccc
Q 038494          753 ENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLE  832 (1209)
Q Consensus       753 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  832 (1209)
                              -++++.|+...+.-.+...     -..-.+|++++++... +..+   +.|  ...+++|+.+.... +.+.
T Consensus       218 --------g~~l~~L~a~~n~l~~~~~-----~p~p~nl~~~dis~n~-l~~l---p~w--i~~~~nle~l~~n~-N~l~  277 (1081)
T KOG0618|consen  218 --------GPSLTALYADHNPLTTLDV-----HPVPLNLQYLDISHNN-LSNL---PEW--IGACANLEALNANH-NRLV  277 (1081)
T ss_pred             --------CcchheeeeccCcceeecc-----ccccccceeeecchhh-hhcc---hHH--HHhcccceEecccc-hhHH
Confidence                    0233444443332221111     1112456666666543 1111   222  24467777777765 5555


Q ss_pred             hhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCC
Q 038494          833 AICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTA  912 (1209)
Q Consensus       833 ~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  912 (1209)
                      .++...    ..+.+|+.|.+..| .++++|+  ....+.+|++|++... ++...+.....                  
T Consensus       278 ~lp~ri----~~~~~L~~l~~~~n-el~yip~--~le~~~sL~tLdL~~N-~L~~lp~~~l~------------------  331 (1081)
T KOG0618|consen  278 ALPLRI----SRITSLVSLSAAYN-ELEYIPP--FLEGLKSLRTLDLQSN-NLPSLPDNFLA------------------  331 (1081)
T ss_pred             hhHHHH----hhhhhHHHHHhhhh-hhhhCCC--cccccceeeeeeehhc-cccccchHHHh------------------
Confidence            443332    23567777777776 5777765  4456788888888764 33333221110                  


Q ss_pred             CCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccc
Q 038494          913 PKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKT  992 (1209)
Q Consensus       913 ~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~  992 (1209)
                         -...+|..|..+.. .++..+       ......++.|+.|++.++.--.+.++ . ...++.|+.|++++. .|. 
T Consensus       332 ---v~~~~l~~ln~s~n-~l~~lp-------~~~e~~~~~Lq~LylanN~Ltd~c~p-~-l~~~~hLKVLhLsyN-rL~-  396 (1081)
T KOG0618|consen  332 ---VLNASLNTLNVSSN-KLSTLP-------SYEENNHAALQELYLANNHLTDSCFP-V-LVNFKHLKVLHLSYN-RLN-  396 (1081)
T ss_pred             ---hhhHHHHHHhhhhc-cccccc-------cccchhhHHHHHHHHhcCcccccchh-h-hccccceeeeeeccc-ccc-
Confidence               00011222332221 111111       01123567888888887553332222 1 135788888888885 344 


Q ss_pred             cccCccccCCCcccccccccccccccccccccchhhhhhh-hhhccccccceEEeeccCCceeeccCCCCCcccCCCccE
Q 038494          993 FSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYY-KEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLAR 1071 (1209)
Q Consensus       993 l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~ 1071 (1209)
                              .+|...+.      +++.|+.|++++|..... .....++.|++|-..+ +.+..++ +    +..++.|+.
T Consensus       397 --------~fpas~~~------kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahs-N~l~~fP-e----~~~l~qL~~  456 (1081)
T KOG0618|consen  397 --------SFPASKLR------KLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHS-NQLLSFP-E----LAQLPQLKV  456 (1081)
T ss_pred             --------cCCHHHHh------chHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcC-Cceeech-h----hhhcCcceE
Confidence                    45554444      678888888888876543 3455778888886654 5666654 2    556788888


Q ss_pred             EEEecCCCCcccc-chhhHhhhccCcEEEEccCCch
Q 038494         1072 LVVDDCTNMSSAI-PANLLRCLNNLRRLEVRNCDSL 1106 (1209)
Q Consensus      1072 L~i~~c~~l~~~~-~~~~~~~l~~L~~L~i~~c~~l 1106 (1209)
                      +|+ +|+++.... |... .. ++|++|+++++..+
T Consensus       457 lDl-S~N~L~~~~l~~~~-p~-p~LkyLdlSGN~~l  489 (1081)
T KOG0618|consen  457 LDL-SCNNLSEVTLPEAL-PS-PNLKYLDLSGNTRL  489 (1081)
T ss_pred             Eec-ccchhhhhhhhhhC-CC-cccceeeccCCccc
Confidence            888 467766432 2211 11 68888888888753

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

Probab=99.67  E-value=2.9e-17  Score=179.37  Aligned_cols=338  Identities=16%  Similarity=0.186  Sum_probs=202.3

Q ss_pred             hcCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcE
Q 038494          517 IQKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQT  594 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~  594 (1209)
                      ..+++..+++..|.+..+|... ...++..|++.+|  .+.++....++.++.||+||||.|.|+.+|. ++..-.++++
T Consensus       100 nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N--~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~  177 (873)
T KOG4194|consen  100 NLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHN--LISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKK  177 (873)
T ss_pred             cCCcceeeeeccchhhhcccccccccceeEEeeecc--ccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceE
Confidence            3566777777777777888776 3556888888777  5666666667778888888888888887765 5666678888


Q ss_pred             EeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          595 LCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       595 L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      |+|++|.|+.+  ..|.++.+|-+|.+++|+++.+|.. +.+|++|+.|++.. +.++.+..-.|..|++|+.|.+..|.
T Consensus       178 L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnr-N~irive~ltFqgL~Sl~nlklqrN~  256 (873)
T KOG4194|consen  178 LNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNR-NRIRIVEGLTFQGLPSLQNLKLQRND  256 (873)
T ss_pred             EeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccc-cceeeehhhhhcCchhhhhhhhhhcC
Confidence            88888888877  6777888888888888888888754 55588888888877 56665544446777777777776553


Q ss_pred             CccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc--cccCCCCeEEEEEcccCccc---cCCCCCccEEEEecCC
Q 038494          672 PQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD--LVFVELPRYRICIGEAWGIW---RANSETSRLVQLHGLE  746 (1209)
Q Consensus       672 ~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~---~~~~~~~~~l~l~~l~  746 (1209)
                      +.--.        -+.+-.+.++++|++..+.+......  ..+..|+.|.++.+...+.-   ......+..+.|..  
T Consensus       257 I~kL~--------DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~--  326 (873)
T KOG4194|consen  257 ISKLD--------DGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSS--  326 (873)
T ss_pred             ccccc--------CcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccc--
Confidence            21100        01233455666666666655554443  24455555555433322110   11122222222222  


Q ss_pred             CcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecc
Q 038494          747 NVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLY  826 (1209)
Q Consensus       747 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~  826 (1209)
                       ......+.+-...+..|+.|.+.... ++.+-..  .+.++.+|++|+++++.-.-.+.+  ......++++|++|.+.
T Consensus       327 -N~i~~l~~~sf~~L~~Le~LnLs~Ns-i~~l~e~--af~~lssL~~LdLr~N~ls~~IED--aa~~f~gl~~LrkL~l~  400 (873)
T KOG4194|consen  327 -NRITRLDEGSFRVLSQLEELNLSHNS-IDHLAEG--AFVGLSSLHKLDLRSNELSWCIED--AAVAFNGLPSLRKLRLT  400 (873)
T ss_pred             -cccccCChhHHHHHHHhhhhcccccc-hHHHHhh--HHHHhhhhhhhcCcCCeEEEEEec--chhhhccchhhhheeec
Confidence             12122333444445666666665422 2221111  134577788888876543222211  11123447888888888


Q ss_pred             cccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEe
Q 038494          827 KLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVA  880 (1209)
Q Consensus       827 ~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~  880 (1209)
                      + ++++.++..++..   ++.|++|++.+.+ +.++-+. .+.++ .|++|.+.
T Consensus       401 g-Nqlk~I~krAfsg---l~~LE~LdL~~Na-iaSIq~n-AFe~m-~Lk~Lv~n  447 (873)
T KOG4194|consen  401 G-NQLKSIPKRAFSG---LEALEHLDLGDNA-IASIQPN-AFEPM-ELKELVMN  447 (873)
T ss_pred             C-ceeeecchhhhcc---CcccceecCCCCc-ceeeccc-ccccc-hhhhhhhc
Confidence            7 7788777766644   8888888887753 3333221 22333 66666554

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

Probab=99.64  E-value=9.4e-18  Score=183.78  Aligned_cols=124  Identities=23%  Similarity=0.263  Sum_probs=91.5

Q ss_pred             EEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCC
Q 038494          545 LLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSD  623 (1209)
Q Consensus       545 ~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~  623 (1209)
                      -.++++|+......|.++ ..++.++.|.|..+.+..+|+.++.|.+|++|.+.+|++..+ ..+..|+.|+.++++.|+
T Consensus        11 GvDfsgNDFsg~~FP~~v-~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~   89 (1255)
T KOG0444|consen   11 GVDFSGNDFSGDRFPHDV-EQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNN   89 (1255)
T ss_pred             cccccCCcCCCCcCchhH-HHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccc
Confidence            334444443334445444 678888888888888888888888888888888888887777 677788888888888886


Q ss_pred             CC--ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          624 IK--QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       624 ~~--~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      ++  .+|..|-+|..|..|++++ +.++.+|.+ +....++-.|++++|.
T Consensus        90 LKnsGiP~diF~l~dLt~lDLSh-NqL~EvP~~-LE~AKn~iVLNLS~N~  137 (1255)
T KOG0444|consen   90 LKNSGIPTDIFRLKDLTILDLSH-NQLREVPTN-LEYAKNSIVLNLSYNN  137 (1255)
T ss_pred             cccCCCCchhcccccceeeecch-hhhhhcchh-hhhhcCcEEEEcccCc
Confidence            66  6788888888888888888 677777765 6777777777776653

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

Probab=99.62  E-value=2.2e-17  Score=190.59  Aligned_cols=99  Identities=24%  Similarity=0.315  Sum_probs=48.4

Q ss_pred             CcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCC
Q 038494          569 LKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       569 Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~  646 (1209)
                      +..|+++.|.+-..|- .+.+..+|+.|++++|.+... ..++.+.+|+.|+++.|.+..+|.+++++.+|++|.+.+ +
T Consensus        23 ~~~ln~~~N~~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~-n  101 (1081)
T KOG0618|consen   23 LQILNLRRNSLLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKN-N  101 (1081)
T ss_pred             HHhhhccccccccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheecc-c
Confidence            5555555554443331 122333355555555554444 445555555555555555555555555555555555544 4


Q ss_pred             CCcccCchhhcCCCCCcEEECCC
Q 038494          647 SLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       647 ~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      .+...|.+ +..+.+|+.|+++.
T Consensus       102 ~l~~lP~~-~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen  102 RLQSLPAS-ISELKNLQYLDLSF  123 (1081)
T ss_pred             hhhcCchh-HHhhhcccccccch
Confidence            44444332 44555555555544

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

Probab=99.37  E-value=1e-14  Score=134.87  Aligned_cols=166  Identities=24%  Similarity=0.391  Sum_probs=138.9

Q ss_pred             CccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-cccc
Q 038494          531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIG  609 (1209)
Q Consensus       531 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~  609 (1209)
                      +.+++....++++..|.+++|  ....+|+.+ ..+++|.+|++++|+++++|.+|+.++.|+.|++.-|++..+ .+||
T Consensus        23 f~~~~gLf~~s~ITrLtLSHN--Kl~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfg   99 (264)
T KOG0617|consen   23 FEELPGLFNMSNITRLTLSHN--KLTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFG   99 (264)
T ss_pred             HhhcccccchhhhhhhhcccC--ceeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccC
Confidence            345666667778888888887  466667665 789999999999999999999999999999999999998777 8999


Q ss_pred             CCCCCCEEEccCCCCC--ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhh
Q 038494          610 QLKKLEILSFRYSDIK--QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAE  687 (1209)
Q Consensus       610 ~L~~L~~L~l~~~~~~--~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~  687 (1209)
                      .++-|++||+++|++.  .+|..+-.++.|+.|++++ +.+..+|++ ++++++||.|.+..+.         ......+
T Consensus       100 s~p~levldltynnl~e~~lpgnff~m~tlralyl~d-ndfe~lp~d-vg~lt~lqil~lrdnd---------ll~lpke  168 (264)
T KOG0617|consen  100 SFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD-NDFEILPPD-VGKLTNLQILSLRDND---------LLSLPKE  168 (264)
T ss_pred             CCchhhhhhccccccccccCCcchhHHHHHHHHHhcC-CCcccCChh-hhhhcceeEEeeccCc---------hhhCcHH
Confidence            9999999999998776  7898888889999999998 778888877 8999999999887652         2334567


Q ss_pred             hCCCCCCCEEEeeccCCCCCCcc
Q 038494          688 LKGLSKLTTLEIQVQDAQMLPQD  710 (1209)
Q Consensus       688 L~~l~~L~~L~l~~~~~~~~~~~  710 (1209)
                      ++.+.+|++|+|.++....+|..
T Consensus       169 ig~lt~lrelhiqgnrl~vlppe  191 (264)
T KOG0617|consen  169 IGDLTRLRELHIQGNRLTVLPPE  191 (264)
T ss_pred             HHHHHHHHHHhcccceeeecChh
Confidence            88889999999999988887765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.36  E-value=1.7e-11  Score=160.20  Aligned_cols=297  Identities=16%  Similarity=0.235  Sum_probs=180.9

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~  233 (1209)
                      |.....++-|....+.+.+   ....+++.|+|++|.||||++.++++.      ++.++|+++... .+...+...++.
T Consensus        10 p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             CCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHH
Confidence            3335567788766555543   245689999999999999999998853      236899999744 466667677776


Q ss_pred             HhCCCCCC-------------CCChHHHHHHHHHHHhc-CCeEEEEEeCCCcccCc--c-ccCCCCCCCCccccccccCC
Q 038494          234 DLDLNFDL-------------NDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKLGL--E-EIGIPFGDVDEKDRKQDLRR  296 (1209)
Q Consensus       234 ~l~~~~~~-------------~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~~--~-~l~~~~~~~~~~~~~~~~~~  296 (1209)
                      .++.....             ..........+...+.. +.+++||+||+...+.-  . .+...+....        .+
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~--------~~  152 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQP--------EN  152 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCC--------CC
Confidence            66421111             01223344455566654 57899999999875311  1 1211111111        56


Q ss_pred             cEEEEeccchhhhcc-cC-CcceEEEcC----CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHH
Q 038494          297 RTIILTSRSKHLLTN-DM-NSQKIFLIE----VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANA  370 (1209)
Q Consensus       297 s~ilvTtR~~~v~~~-~~-~~~~~~~l~----~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~  370 (1209)
                      .++|||||....... .. ......++.    +|+.+|+.++|....+...    ..+.+.+|.+.|+|+|+++..++..
T Consensus       153 ~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~  228 (903)
T PRK04841        153 LTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALS  228 (903)
T ss_pred             eEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHH
Confidence            788899998532210 00 112244555    8999999999988765322    2456779999999999999999877


Q ss_pred             HhcCChhHHHHHHHHHhcCCCccccCccccceeee-EEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhcccc
Q 038494          371 LKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSI-ELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNV  449 (1209)
Q Consensus       371 l~~~~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l-~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~  449 (1209)
                      +...... .......+....       ...+...+ ...|+.||++ .+.++...|+++   .|+.+.+-.+ .|     
T Consensus       229 ~~~~~~~-~~~~~~~~~~~~-------~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~~~---~~~~~l~~~l-~~-----  290 (903)
T PRK04841        229 ARQNNSS-LHDSARRLAGIN-------ASHLSDYLVEEVLDNVDLE-TRHFLLRCSVLR---SMNDALIVRV-TG-----  290 (903)
T ss_pred             HhhCCCc-hhhhhHhhcCCC-------chhHHHHHHHHHHhcCCHH-HHHHHHHhcccc---cCCHHHHHHH-cC-----
Confidence            7543210 011111111000       11122222 2236789998 999999999986   3454433222 11     


Q ss_pred             ccHHHHHHHHHHHHHHHHhcccccC-C-CCCCceEehhHHHHHHHHHhh
Q 038494          450 RTLENARNRVDALIDNLKASCLLLD-G-DAEDEVKMHDVIHVVAVSIAS  496 (1209)
Q Consensus       450 ~~~~~~~~~~~~~~~~L~~~~ll~~-~-~~~~~~~mHdlv~~~~~~~~~  496 (1209)
                        ..+    ..+.+++|.+.+++.. . +...+|..|+++|+++.....
T Consensus       291 --~~~----~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        291 --EEN----GQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             --CCc----HHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHH
Confidence              111    2346788888888653 2 234579999999999987763

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.26  E-value=3.4e-10  Score=131.88  Aligned_cols=296  Identities=18%  Similarity=0.186  Sum_probs=191.2

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~  233 (1209)
                      |......+-|...++.+..   ....+.+.|..++|.||||++.+.+.....   =..+.|+++.+.. ++..+...++.
T Consensus        15 P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~---~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD---GAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc---ccceeEeecCCccCCHHHHHHHHHH
Confidence            3335567777555444443   247899999999999999999999883332   3468999998654 68888888888


Q ss_pred             HhCCCCCCC-------------CChHHHHHHHHHHHhc-CCeEEEEEeCCCccc------CccccCCCCCCCCccccccc
Q 038494          234 DLDLNFDLN-------------DSKPHRAKQLCQRLTK-EKRVLIILDNIWKKL------GLEEIGIPFGDVDEKDRKQD  293 (1209)
Q Consensus       234 ~l~~~~~~~-------------~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~------~~~~l~~~~~~~~~~~~~~~  293 (1209)
                      .++...+..             .......+.+..++.. .++..+|+||..-..      ..+.+....|          
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P----------  158 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAP----------  158 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCC----------
Confidence            776433222             1224455667776653 367899999976442      2333333333          


Q ss_pred             cCCcEEEEeccchhhhccc--CCcceEEEcC----CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          294 LRRRTIILTSRSKHLLTND--MNSQKIFLIE----VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~--~~~~~~~~l~----~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                       .+-.+|||||........  .-....++++    .|+.||+.++|....+..-    .+..++.+.+..+|.+-|+..+
T Consensus       159 -~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L----d~~~~~~L~~~teGW~~al~L~  233 (894)
T COG2909         159 -ENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL----DAADLKALYDRTEGWAAALQLI  233 (894)
T ss_pred             -CCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC----ChHHHHHHHhhcccHHHHHHHH
Confidence             678899999998643211  0111233333    4899999999998765322    3456779999999999999999


Q ss_pred             HHHHhcC-ChhHHHHHHHHHhcCCCccccCccccce-eeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhh
Q 038494          368 ANALKNK-KLPVWKDALTQLRNSNPREIHGMDANVC-SSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGL  445 (1209)
Q Consensus       368 ~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~~~~~v~-~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~  445 (1209)
                      +-.+++. +.+.-...+.           +..+-+. ....--++.||++ +|..+..+|+++.   |. +.|+..-.  
T Consensus       234 aLa~~~~~~~~q~~~~Ls-----------G~~~~l~dYL~eeVld~Lp~~-l~~FLl~~svl~~---f~-~eL~~~Lt--  295 (894)
T COG2909         234 ALALRNNTSAEQSLRGLS-----------GAASHLSDYLVEEVLDRLPPE-LRDFLLQTSVLSR---FN-DELCNALT--  295 (894)
T ss_pred             HHHccCCCcHHHHhhhcc-----------chHHHHHHHHHHHHHhcCCHH-HHHHHHHHHhHHH---hh-HHHHHHHh--
Confidence            9888833 2222111111           0000000 0111236789998 9999999999876   12 23332211  


Q ss_pred             ccccccHHHHHHHHHHHHHHHHhcccccC--CCCCCceEehhHHHHHHHHHhhcc
Q 038494          446 FKNVRTLENARNRVDALIDNLKASCLLLD--GDAEDEVKMHDVIHVVAVSIASEK  498 (1209)
Q Consensus       446 i~~~~~~~~~~~~~~~~~~~L~~~~ll~~--~~~~~~~~mHdlv~~~~~~~~~~~  498 (1209)
                               .++.....+++|.+++++..  .+...+|+.|.++.||.+.....+
T Consensus       296 ---------g~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~  341 (894)
T COG2909         296 ---------GEENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRE  341 (894)
T ss_pred             ---------cCCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccc
Confidence                     12334457889999998863  356779999999999988776653

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

Probab=99.21  E-value=4.3e-13  Score=142.30  Aligned_cols=299  Identities=16%  Similarity=0.181  Sum_probs=161.1

Q ss_pred             CCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHh
Q 038494          790 RLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIAR  869 (1209)
Q Consensus       790 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  869 (1209)
                      .|+.|.+.||.....   .........+|+++.|.+.+|.++++-....+.  ..+++|+.|.+..|+.+++..-.....
T Consensus       139 ~lk~LSlrG~r~v~~---sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla--~~C~~l~~l~L~~c~~iT~~~Lk~la~  213 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGD---SSLRTFASNCPNIEHLALYGCKKITDSSLLSLA--RYCRKLRHLNLHSCSSITDVSLKYLAE  213 (483)
T ss_pred             ccccccccccccCCc---chhhHHhhhCCchhhhhhhcceeccHHHHHHHH--HhcchhhhhhhcccchhHHHHHHHHHH
Confidence            467777777764321   111113345666666666666666555443332  246666666666666666543322344


Q ss_pred             hcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccc
Q 038494          870 NLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIA  949 (1209)
Q Consensus       870 ~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~  949 (1209)
                      .+++|+.|+++.|+.+..-.                                                     ......+
T Consensus       214 gC~kL~~lNlSwc~qi~~~g-----------------------------------------------------v~~~~rG  240 (483)
T KOG4341|consen  214 GCRKLKYLNLSWCPQISGNG-----------------------------------------------------VQALQRG  240 (483)
T ss_pred             hhhhHHHhhhccCchhhcCc-----------------------------------------------------chHHhcc
Confidence            56666666666665443210                                                     0001112


Q ss_pred             cccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcccccccccccccccccccccchhhh
Q 038494          950 FSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQ 1029 (1209)
Q Consensus       950 ~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~ 1029 (1209)
                      +..++++.+.+|..+..-........++.+..+++..|..+++...  ..            -...+..||.|..++|..
T Consensus       241 ~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~--~~------------i~~~c~~lq~l~~s~~t~  306 (483)
T KOG4341|consen  241 CKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDL--WL------------IACGCHALQVLCYSSCTD  306 (483)
T ss_pred             chhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHH--HH------------HhhhhhHhhhhcccCCCC
Confidence            3334444444444333221111112233344444445544442110  00            011345666666666655


Q ss_pred             hhhhhh----ccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCc
Q 038494         1030 KYYKEM----IGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDS 1105 (1209)
Q Consensus      1030 ~~~~~~----~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~ 1105 (1209)
                      .....+    .++++|+.|.+..|.++++....  ..-.+.+.|+.+++.+|....+.--.....+|+.|+.|.++.|..
T Consensus       307 ~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft--~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~  384 (483)
T KOG4341|consen  307 ITDEVLWALGQHCHNLQVLELSGCQQFSDRGFT--MLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCEL  384 (483)
T ss_pred             CchHHHHHHhcCCCceEEEeccccchhhhhhhh--hhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhh
Confidence            332222    25678888888888876653211  112356789999998887766532233456789999999999987


Q ss_pred             hhhhhhcccccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCCCccc
Q 038494         1106 LEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMET 1169 (1209)
Q Consensus      1106 l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~~l~~ 1169 (1209)
                      +++--.-.    + .........|..+.+++||.++.--.  ..+..++.|+.+++.+|+.+..
T Consensus       385 itD~gi~~----l-~~~~c~~~~l~~lEL~n~p~i~d~~L--e~l~~c~~Leri~l~~~q~vtk  441 (483)
T KOG4341|consen  385 ITDEGIRH----L-SSSSCSLEGLEVLELDNCPLITDATL--EHLSICRNLERIELIDCQDVTK  441 (483)
T ss_pred             hhhhhhhh----h-hhccccccccceeeecCCCCchHHHH--HHHhhCcccceeeeechhhhhh
Confidence            66541000    0 01112456788899999998865433  4567888899988888876644

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.19  E-value=1.8e-09  Score=126.03  Aligned_cols=293  Identities=16%  Similarity=0.111  Sum_probs=170.8

Q ss_pred             ccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      +..|+||++++++|...+.    ......+.|+|++|+|||++++.++++.......-.++++++....+...++..+++
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            4578999999999999885    233456889999999999999999998865432335677888777788899999999


Q ss_pred             HhCCC-CCC-CCChHHHHHHHHHHHhc-CCeEEEEEeCCCccc---C---ccccCCCCCCCCccccccccCCcE--EEEe
Q 038494          234 DLDLN-FDL-NDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKL---G---LEEIGIPFGDVDEKDRKQDLRRRT--IILT  302 (1209)
Q Consensus       234 ~l~~~-~~~-~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~---~---~~~l~~~~~~~~~~~~~~~~~~s~--ilvT  302 (1209)
                      ++... ... .....+....+.+.+.. +++.+||+|+++...   .   +..+...... .        .+++  +|.+
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~--------~~~~v~vI~i  179 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-Y--------PGARIGVIGI  179 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-c--------CCCeEEEEEE
Confidence            98652 211 11224555666666653 467899999998753   1   1122111111 1        2323  5555


Q ss_pred             ccchhhhcc------cCCcceEEEcCCCCHHHHHHHHHHHhCCCC-CCCcchHHHHHHHHHh----CCChhHHHHHHHHH
Q 038494          303 SRSKHLLTN------DMNSQKIFLIEVLSKEEALQFFEKIVGNSA-KASAFQPLADEIVGKC----GGLPVALSTVANAL  371 (1209)
Q Consensus       303 tR~~~v~~~------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~~~~~~~~~~i~~~~----~glPLai~~~~~~l  371 (1209)
                      +....+...      ..-....+.+++++.++..+++..++.... ...-..+.++.|++.+    |..+.|+.++-...
T Consensus       180 ~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~  259 (394)
T PRK00411        180 SSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAG  259 (394)
T ss_pred             ECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            554432211      011235789999999999999998864211 1111233444454444    55777777764322


Q ss_pred             --h---cC---ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccCc--CccccHHHHHHh
Q 038494          372 --K---NK---KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGE--GTPIQVASLLRY  441 (1209)
Q Consensus       372 --~---~~---~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~--~~~i~~~~li~~  441 (1209)
                        +   +.   +.+.+..+.+++...              ...-.+..||.+ .|..+..++...+  ...+....+...
T Consensus       260 ~~a~~~~~~~I~~~~v~~a~~~~~~~--------------~~~~~~~~L~~~-~k~~L~ai~~~~~~~~~~~~~~~i~~~  324 (394)
T PRK00411        260 LIAEREGSRKVTEEDVRKAYEKSEIV--------------HLSEVLRTLPLH-EKLLLRAIVRLLKKGGDEVTTGEVYEE  324 (394)
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHHHHH--------------HHHHHHhcCCHH-HHHHHHHHHHHHhcCCCcccHHHHHHH
Confidence              1   11   455666666654211              122357789887 4444443332211  124555555432


Q ss_pred             hhhhccccccHHHHHHHHHHHHHHHHhcccccC
Q 038494          442 GKGLFKNVRTLENARNRVDALIDNLKASCLLLD  474 (1209)
Q Consensus       442 ~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  474 (1209)
                      -..+........-....+.++++.|...+++..
T Consensus       325 y~~l~~~~~~~~~~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        325 YKELCEELGYEPRTHTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             HHHHHHHcCCCcCcHHHHHHHHHHHHhcCCeEE
Confidence            111110000001123556778889999998863

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

Probab=99.17  E-value=6.9e-13  Score=122.84  Aligned_cols=149  Identities=21%  Similarity=0.378  Sum_probs=122.9

Q ss_pred             cCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          518 QKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ...+.++.++.|.+..+|..+ ++.+|.+|+++.|  .+.++|..+ +.+++||.|++.-|.+..+|..||.++-|++||
T Consensus        32 ~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nn--qie~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~levld  108 (264)
T KOG0617|consen   32 MSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNN--QIEELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPALEVLD  108 (264)
T ss_pred             hhhhhhhhcccCceeecCCcHHHhhhhhhhhcccc--hhhhcChhh-hhchhhhheecchhhhhcCccccCCCchhhhhh
Confidence            346678888888888887665 7888999988887  577777765 788999999999888888899999999999999


Q ss_pred             ccCcccCC--c-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          597 LDWCQLED--V-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       597 l~~~~l~~--l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      +.+|.+.+  + ..|..+.-|+-|.++.|.++.+|+.+++|++||.|.++. +.+-.+|.+ ++.++.|++|.+.++.
T Consensus       109 ltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrd-ndll~lpke-ig~lt~lrelhiqgnr  184 (264)
T KOG0617|consen  109 LTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRD-NDLLSLPKE-IGDLTRLRELHIQGNR  184 (264)
T ss_pred             ccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeecc-CchhhCcHH-HHHHHHHHHHhcccce
Confidence            99888654  3 567778888888888898888999999999999999888 666677766 8889999999888765

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

Probab=99.16  E-value=6.1e-12  Score=132.40  Aligned_cols=291  Identities=19%  Similarity=0.195  Sum_probs=179.6

Q ss_pred             CCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccC-cccCCc--
Q 038494          530 DIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDW-CQLEDV--  605 (1209)
Q Consensus       530 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~-~~l~~l--  605 (1209)
                      .+.++|.... +.-..+++..|  .+..+|+..|+.+++||.|||+.|.|+.| |+.|..+..|-.|-+.+ |.|+++  
T Consensus        57 GL~eVP~~LP-~~tveirLdqN--~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k  133 (498)
T KOG4237|consen   57 GLTEVPANLP-PETVEIRLDQN--QISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPK  133 (498)
T ss_pred             CcccCcccCC-CcceEEEeccC--CcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhh
Confidence            4556665432 35566778777  68899999999999999999999999976 77899999988887777 889999  


Q ss_pred             ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccc
Q 038494          606 AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNAS  684 (1209)
Q Consensus       606 ~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~  684 (1209)
                      ..|++|..|+.|.+..|++..++ ..+..|++|..|.+.+ +.+..++.+.+..+..++++.+..+..            
T Consensus       134 ~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyD-n~~q~i~~~tf~~l~~i~tlhlA~np~------------  200 (498)
T KOG4237|consen  134 GAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYD-NKIQSICKGTFQGLAAIKTLHLAQNPF------------  200 (498)
T ss_pred             hHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccc-hhhhhhccccccchhccchHhhhcCcc------------
Confidence            67999999999999999888664 4588899999999998 778888877788888899888754421            


Q ss_pred             hhhhCCCCCCCE----EEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHH
Q 038494          685 LAELKGLSKLTT----LEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKML  760 (1209)
Q Consensus       685 l~~L~~l~~L~~----L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~  760 (1209)
                       ....+++.+..    +.+.........+         .                ......+...+-.   ..-.....+
T Consensus       201 -icdCnL~wla~~~a~~~ietsgarc~~p---------~----------------rl~~~Ri~q~~a~---kf~c~~esl  251 (498)
T KOG4237|consen  201 -ICDCNLPWLADDLAMNPIETSGARCVSP---------Y----------------RLYYKRINQEDAR---KFLCSLESL  251 (498)
T ss_pred             -ccccccchhhhHHhhchhhcccceecch---------H----------------HHHHHHhcccchh---hhhhhHHhH
Confidence             11222222221    0000000000000         0                0000000000000   000000000


Q ss_pred             hcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccc
Q 038494          761 LKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLR  840 (1209)
Q Consensus       761 ~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  840 (1209)
                         ...+.. .+......+...  +..+|+|+.|+++++. ++.+.  .++  ......++.|.+.. ++++.+....+.
T Consensus       252 ---~s~~~~-~d~~d~~cP~~c--f~~L~~L~~lnlsnN~-i~~i~--~~a--Fe~~a~l~eL~L~~-N~l~~v~~~~f~  319 (498)
T KOG4237|consen  252 ---PSRLSS-EDFPDSICPAKC--FKKLPNLRKLNLSNNK-ITRIE--DGA--FEGAAELQELYLTR-NKLEFVSSGMFQ  319 (498)
T ss_pred             ---HHhhcc-ccCcCCcChHHH--HhhcccceEeccCCCc-cchhh--hhh--hcchhhhhhhhcCc-chHHHHHHHhhh
Confidence               000111 111111111111  5678999999998865 33221  111  22356788888887 778777666554


Q ss_pred             cccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecc
Q 038494          841 EDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASC  882 (1209)
Q Consensus       841 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c  882 (1209)
                         .+..|+.|++++. .++.+.+ ..++.+.+|.+|.+-..
T Consensus       320 ---~ls~L~tL~L~~N-~it~~~~-~aF~~~~~l~~l~l~~N  356 (498)
T KOG4237|consen  320 ---GLSGLKTLSLYDN-QITTVAP-GAFQTLFSLSTLNLLSN  356 (498)
T ss_pred             ---ccccceeeeecCC-eeEEEec-ccccccceeeeeehccC
Confidence               3788899999885 5666654 35677888888887653

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.14  E-value=6.7e-10  Score=134.37  Aligned_cols=157  Identities=22%  Similarity=0.256  Sum_probs=110.2

Q ss_pred             CeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccC
Q 038494          520 GAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       520 ~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~  599 (1209)
                      .-..+.+..+.+..+|.... ++|+.|.+.+|  .+..+|.    ..++|++|++++|.++.+|..   ..+|+.|++++
T Consensus       202 ~~~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N--~Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~  271 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCLP-AHITTLVIPDN--NLTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIFS  271 (788)
T ss_pred             CCcEEEcCCCCCCcCCcchh-cCCCEEEccCC--cCCCCCC----CCCCCcEEEecCCccCcccCc---ccccceeeccC
Confidence            34567788888888887543 57888888887  3555653    357899999999999888863   46788999999


Q ss_pred             cccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccC
Q 038494          600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       600 ~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      |.++.++.  ...+|+.|++++|+++.+|..   +++|++|++++ +.++.+|..    ..+|+.|++++|...      
T Consensus       272 N~L~~Lp~--lp~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~-N~L~~Lp~l----p~~L~~L~Ls~N~L~------  335 (788)
T PRK15387        272 NPLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSD-NQLASLPAL----PSELCKLWAYNNQLT------  335 (788)
T ss_pred             Cchhhhhh--chhhcCEEECcCCcccccccc---ccccceeECCC-CccccCCCC----cccccccccccCccc------
Confidence            98877633  235688899999988888863   46789999988 567766542    235667777665321      


Q ss_pred             CCccchhhhCCC-CCCCEEEeeccCCCCCCc
Q 038494          680 GSNASLAELKGL-SKLTTLEIQVQDAQMLPQ  709 (1209)
Q Consensus       680 ~~~~~l~~L~~l-~~L~~L~l~~~~~~~~~~  709 (1209)
                             .+..+ .+|+.|+++.|.+..+|.
T Consensus       336 -------~LP~lp~~Lq~LdLS~N~Ls~LP~  359 (788)
T PRK15387        336 -------SLPTLPSGLQELSVSDNQLASLPT  359 (788)
T ss_pred             -------cccccccccceEecCCCccCCCCC
Confidence                   11112 368888888877766553

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

Probab=99.12  E-value=3.8e-12  Score=135.22  Aligned_cols=272  Identities=17%  Similarity=0.196  Sum_probs=180.9

Q ss_pred             CCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEe
Q 038494          846 SNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLK  925 (1209)
Q Consensus       846 ~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~  925 (1209)
                      ..|++|.+++|.....-+.....++++++++|.+.+|.++++.......                     ..++.|+.|.
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla---------------------~~C~~l~~l~  196 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLA---------------------RYCRKLRHLN  196 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHH---------------------Hhcchhhhhh
Confidence            3567777777766665555556667777777777777766554322111                     4556777777


Q ss_pred             eccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcc
Q 038494          926 VSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCK 1005 (1209)
Q Consensus       926 l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~ 1005 (1209)
                      +..|.+++......      ....|++|+.|.++.|+.+..-........+..++.+...+|..+..-..          
T Consensus       197 L~~c~~iT~~~Lk~------la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l----------  260 (483)
T KOG4341|consen  197 LHSCSSITDVSLKY------LAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEAL----------  260 (483)
T ss_pred             hcccchhHHHHHHH------HHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHH----------
Confidence            77777777654321      23468999999999999988754444445566677777778876541000          


Q ss_pred             cccccccccccccccccccchhhhhhhhhhc----cccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCc
Q 038494         1006 VQVTEKEEGELHHWEGNNLNSIMQKYYKEMI----GFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMS 1081 (1209)
Q Consensus      1006 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~----~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~ 1081 (1209)
                          ....+...-+-.+++.+|...+.....    ++..|+.|+.++|.++.+.....  ...+..+|+.|.+++|.++.
T Consensus       261 ----~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~a--Lg~~~~~L~~l~l~~c~~fs  334 (483)
T KOG4341|consen  261 ----LKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWA--LGQHCHNLQVLELSGCQQFS  334 (483)
T ss_pred             ----HHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHH--HhcCCCceEEEeccccchhh
Confidence                011113344556667788665554433    68899999999999887643321  23456899999999999988


Q ss_pred             cccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccc--cCCCccCCCCccEE
Q 038494         1082 SAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCN--FTGNIIELPELRYL 1159 (1209)
Q Consensus      1082 ~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~--~~~~l~~l~~L~~L 1159 (1209)
                      +..-..+..+++.|+.+++..|..+..-...        ......|.|+.|.+++|..+++-..  +...-.....|+.+
T Consensus       335 d~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~--------sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~l  406 (483)
T KOG4341|consen  335 DRGFTMLGRNCPHLERLDLEECGLITDGTLA--------SLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVL  406 (483)
T ss_pred             hhhhhhhhcCChhhhhhcccccceehhhhHh--------hhccCCchhccCChhhhhhhhhhhhhhhhhcccccccccee
Confidence            7665666788999999999999977554111        1123679999999999988876511  01122356678888


Q ss_pred             eeecCCCcc
Q 038494         1160 TIENCPDME 1168 (1209)
Q Consensus      1160 ~i~~C~~l~ 1168 (1209)
                      .+.+||.+.
T Consensus       407 EL~n~p~i~  415 (483)
T KOG4341|consen  407 ELDNCPLIT  415 (483)
T ss_pred             eecCCCCch
Confidence            888888764

>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=99.09  E-value=3.2e-10  Score=122.45  Aligned_cols=198  Identities=24%  Similarity=0.322  Sum_probs=105.4

Q ss_pred             hhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH---------H
Q 038494          161 FDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK---------L  231 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~---------i  231 (1209)
                      |+||+++++.|.+++..+..+.+.|+|+.|+|||+|++++.+...... + .++|+..........+...         +
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            789999999999999877778999999999999999999999885422 2 3344444333322221111         1


Q ss_pred             HHHhCCCCC----------CCCChHHHHHHHHHHHhc-CCeEEEEEeCCCccc-Ccc---cc----CCCCCCCCcccccc
Q 038494          232 ASDLDLNFD----------LNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKL-GLE---EI----GIPFGDVDEKDRKQ  292 (1209)
Q Consensus       232 ~~~l~~~~~----------~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~-~~~---~l----~~~~~~~~~~~~~~  292 (1209)
                      .+.+.....          ...........+.+.+.+ +++.+||+||++... ..+   .+    ...+..      ..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~------~~  152 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDS------LL  152 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--------
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhh------cc
Confidence            111211100          111123455566666653 345999999998765 111   11    100000      00


Q ss_pred             ccCCcEEEEeccchhhhcc-------cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          293 DLRRRTIILTSRSKHLLTN-------DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       293 ~~~~s~ilvTtR~~~v~~~-------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      ......++++.........       ..+....+.+++|+.+++++++...+.....-+...+..++|+..+||+|..|.
T Consensus       153 ~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  153 SQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             --TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHH
T ss_pred             ccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHh
Confidence            0123334444433322211       123445699999999999999999765331112235667899999999999886


Q ss_pred             H
Q 038494          366 T  366 (1209)
Q Consensus       366 ~  366 (1209)
                      .
T Consensus       233 ~  233 (234)
T PF01637_consen  233 E  233 (234)
T ss_dssp             H
T ss_pred             c
Confidence            4

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

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

Probab=99.07  E-value=2e-08  Score=110.74  Aligned_cols=197  Identities=18%  Similarity=0.238  Sum_probs=122.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHH---
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQ---  254 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~---  254 (1209)
                      .....+.|+|++|+||||+++.+++...... + .+.|+. ....+..+++..++..++.+.... ........+..   
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~~~-~~~~~~~~l~~~l~  116 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKLV-NTRVDAEDLLRMVAADFGLETEGR-DKAALLRELEDFLI  116 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeeee-CCCCCHHHHHHHHHHHcCCCCCCC-CHHHHHHHHHHHHH
Confidence            3456899999999999999999998876321 1 223433 334577889999999988764432 22333333333   


Q ss_pred             -HHhcCCeEEEEEeCCCccc--CccccCC---CCCCCCccccccccCCcEEEEeccchhh---hc-----ccCCcceEEE
Q 038494          255 -RLTKEKRVLIILDNIWKKL--GLEEIGI---PFGDVDEKDRKQDLRRRTIILTSRSKHL---LT-----NDMNSQKIFL  320 (1209)
Q Consensus       255 -~l~~~k~~LlvlDdv~~~~--~~~~l~~---~~~~~~~~~~~~~~~~s~ilvTtR~~~v---~~-----~~~~~~~~~~  320 (1209)
                       ....+++.+||+||++...  .++.+..   ......        ....|++|......   ..     ........+.
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~--------~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~  188 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNA--------KLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCH  188 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCC--------CeEEEEEcCCHHHHHHHcCchhHHHHhheeeeee
Confidence             2335788999999999863  3333321   111111        23344555543211   00     0011235688


Q ss_pred             cCCCCHHHHHHHHHHHhCCCC---CCCcchHHHHHHHHHhCCChhHHHHHHHHHh------cC---ChhHHHHHHHHH
Q 038494          321 IEVLSKEEALQFFEKIVGNSA---KASAFQPLADEIVGKCGGLPVALSTVANALK------NK---KLPVWKDALTQL  386 (1209)
Q Consensus       321 l~~L~~~e~~~lf~~~~~~~~---~~~~~~~~~~~i~~~~~glPLai~~~~~~l~------~~---~~~~w~~~~~~l  386 (1209)
                      +++++.+|..+++...+....   ...-..+..+.|++.++|.|..|..++..+-      +.   +.+.++.+..++
T Consensus       189 l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~  266 (269)
T TIGR03015       189 LGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI  266 (269)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence            999999999999988764211   1223457889999999999999999987662      11   445555555543

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.

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.07  E-value=3.6e-10  Score=136.68  Aligned_cols=71  Identities=17%  Similarity=0.148  Sum_probs=39.5

Q ss_pred             cCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHH
Q 038494          789 PRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIA  868 (1209)
Q Consensus       789 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~  868 (1209)
                      ++|+.|.+.++. ++.++        ...++|+.|++++ ++++.++.       ..++|+.|+++++ .++.+|..   
T Consensus       222 ~~L~~L~L~~N~-Lt~LP--------~lp~~Lk~LdLs~-N~LtsLP~-------lp~sL~~L~Ls~N-~L~~Lp~l---  280 (788)
T PRK15387        222 AHITTLVIPDNN-LTSLP--------ALPPELRTLEVSG-NQLTSLPV-------LPPGLLELSIFSN-PLTHLPAL---  280 (788)
T ss_pred             cCCCEEEccCCc-CCCCC--------CCCCCCcEEEecC-CccCcccC-------cccccceeeccCC-chhhhhhc---
Confidence            367777776643 33222        1246777777766 45655421       2456777777765 35555431   


Q ss_pred             hhcccccEEEEecc
Q 038494          869 RNLLRLQKVKVASC  882 (1209)
Q Consensus       869 ~~l~~L~~L~l~~c  882 (1209)
                        +++|+.|+++++
T Consensus       281 --p~~L~~L~Ls~N  292 (788)
T PRK15387        281 --PSGLCKLWIFGN  292 (788)
T ss_pred             --hhhcCEEECcCC
Confidence              245666666654

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.06  E-value=1.8e-08  Score=116.35  Aligned_cols=301  Identities=15%  Similarity=0.148  Sum_probs=167.4

Q ss_pred             ccchhhHHHHHHHHHHHHhC----CCceEEEEEcCCCChHHHHHHHHHHHHhhcc-cC---CEEEEEEcCCCcCHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRN----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-VF---DKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-~f---~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ++.|+||++++++|..++.+    .....+.|+|++|+|||++++.+++...... ..   -..+|+++....+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            34789999999999999863    3446789999999999999999998764321 11   2467888887778888999


Q ss_pred             HHHHHhC---CCCCCC-CChHHHHHHHHHHHh-cCCeEEEEEeCCCccc-CccccCCCCCCCCccccccccCCcEEEEec
Q 038494          230 KLASDLD---LNFDLN-DSKPHRAKQLCQRLT-KEKRVLIILDNIWKKL-GLEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       230 ~i~~~l~---~~~~~~-~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~-~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                      .|++++.   ...... ....+....+.+.+. .+++++||+|+++... ..+.+...+........ .......+|++|
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~-~~~~~v~lI~i~  172 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGD-LDNAKVGVIGIS  172 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccC-CCCCeEEEEEEE
Confidence            9999883   322211 122344556666664 3567999999999772 11111111100000000 000223345555


Q ss_pred             cchhhhcc----cC--CcceEEEcCCCCHHHHHHHHHHHhCC----CCCCCcchHHHHHHHHHhCCChhHH-HHHHHHH-
Q 038494          304 RSKHLLTN----DM--NSQKIFLIEVLSKEEALQFFEKIVGN----SAKASAFQPLADEIVGKCGGLPVAL-STVANAL-  371 (1209)
Q Consensus       304 R~~~v~~~----~~--~~~~~~~l~~L~~~e~~~lf~~~~~~----~~~~~~~~~~~~~i~~~~~glPLai-~~~~~~l-  371 (1209)
                      ........    ..  -....+.+++++.+|..+++..++..    ..-.++..+.+.+++...+|.|-.+ .++-... 
T Consensus       173 n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~  252 (365)
T TIGR02928       173 NDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGE  252 (365)
T ss_pred             CCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            43322110    00  11356889999999999999988741    1112222234455666777887443 3332211 


Q ss_pred             -h---cC---ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhccc--CcCccccHHHHHHhh
Q 038494          372 -K---NK---KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLF--GEGTPIQVASLLRYG  442 (1209)
Q Consensus       372 -~---~~---~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~f--p~~~~i~~~~li~~~  442 (1209)
                       .   +.   +.+..+.+.+.+...              ...-.+..||.+ .+..+..++..  ..+..+....+....
T Consensus       253 ~a~~~~~~~it~~~v~~a~~~~~~~--------------~~~~~i~~l~~~-~~~~l~ai~~~~~~~~~~~~~~~~~~~y  317 (365)
T TIGR02928       253 IAEREGAERVTEDHVEKAQEKIEKD--------------RLLELIRGLPTH-SKLVLLAIANLAANDEDPFRTGEVYEVY  317 (365)
T ss_pred             HHHHcCCCCCCHHHHHHHHHHHHHH--------------HHHHHHHcCCHH-HHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence             1   11   444555555543211              112345678877 55444444321  133346666555532


Q ss_pred             hhhccccccHHHHHHHHHHHHHHHHhcccccC
Q 038494          443 KGLFKNVRTLENARNRVDALIDNLKASCLLLD  474 (1209)
Q Consensus       443 ~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  474 (1209)
                      .-+.............+.+++..|...|++..
T Consensus       318 ~~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~  349 (365)
T TIGR02928       318 KEVCEDIGVDPLTQRRISDLLNELDMLGLVEA  349 (365)
T ss_pred             HHHHHhcCCCCCcHHHHHHHHHHHHhcCCeEE
Confidence            11111000111234667788889999999864

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.

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.99  E-value=2e-09  Score=131.33  Aligned_cols=136  Identities=15%  Similarity=0.271  Sum_probs=88.5

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      .+...+.+.+..+..+|... .++++.|++.+|  .+..+|..++   .+|++|++++|.++.+|..+.  .+|+.|+++
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N--~LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI-PEQITTLILDNN--ELKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc-ccCCcEEEecCC--CCCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECc
Confidence            34566777777777777543 256778888777  3556666543   467888888888877776554  367788888


Q ss_pred             CcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          599 WCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       599 ~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +|.+..+ ..+.  .+|++|++++|.++.+|..+.  .+|++|++++ +.++.+|.. +.  .+|+.|++++|
T Consensus       250 ~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~-N~Lt~LP~~-lp--~sL~~L~Ls~N  314 (754)
T PRK15370        250 INRITELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYD-NSIRTLPAH-LP--SGITHLNVQSN  314 (754)
T ss_pred             CCccCcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCC-CccccCccc-ch--hhHHHHHhcCC
Confidence            8877766 3332  467778887777777776553  4677777777 456655533 21  34555655554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.97  E-value=3.5e-10  Score=140.08  Aligned_cols=296  Identities=23%  Similarity=0.280  Sum_probs=175.0

Q ss_pred             CeEEEEccCCC--CccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEE
Q 038494          520 GAIAISIPYGD--IQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTL  595 (1209)
Q Consensus       520 ~~r~l~l~~~~--~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L  595 (1209)
                      +++.+-+..+.  +..++.  ...++.||+|++++|. ....+|..+ +++-+||||+++++.+..+|..+++|+.|.||
T Consensus       546 ~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~-~l~~LP~~I-~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~L  623 (889)
T KOG4658|consen  546 KLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNS-SLSKLPSSI-GELVHLRYLDLSDTGISHLPSGLGNLKKLIYL  623 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCC-ccCcCChHH-hhhhhhhcccccCCCccccchHHHHHHhhhee
Confidence            67888887775  555655  4479999999999975 667787765 89999999999999999999999999999999


Q ss_pred             eccCcc-cCCccc-ccCCCCCCEEEccCCCCC---ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          596 CLDWCQ-LEDVAA-IGQLKKLEILSFRYSDIK---QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       596 ~l~~~~-l~~l~~-i~~L~~L~~L~l~~~~~~---~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++..+. +..++. ...|.+||+|.+......   ..-..+.+|.+|+.+....+..  .+. ..+..++.|..+...-.
T Consensus       624 nl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~--~~~-e~l~~~~~L~~~~~~l~  700 (889)
T KOG4658|consen  624 NLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV--LLL-EDLLGMTRLRSLLQSLS  700 (889)
T ss_pred             ccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh--HhH-hhhhhhHHHHHHhHhhh
Confidence            999887 344444 455999999999875422   1122344555555555443221  111 11334444443332211


Q ss_pred             CCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcch
Q 038494          671 FPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVST  750 (1209)
Q Consensus       671 ~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~  750 (1209)
                      .     ...........+..+.+|+.|.+..+....+...                   |......              
T Consensus       701 ~-----~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~-------------------~~~~~~~--------------  742 (889)
T KOG4658|consen  701 I-----EGCSKRTLISSLGSLGNLEELSILDCGISEIVIE-------------------WEESLIV--------------  742 (889)
T ss_pred             h-----cccccceeecccccccCcceEEEEcCCCchhhcc-------------------cccccch--------------
Confidence            0     0012233455667777777777766555322210                   0000000              


Q ss_pred             hhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCcc-----ccccCCcccEE-e
Q 038494          751 LLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRV-----HRKVFPLLESL-S  824 (1209)
Q Consensus       751 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~-----~~~~~~~L~~L-~  824 (1209)
                      ..       .++++..+....|........    ..-.|+|+.|.+..|..++.+.+.....     ....|+++..+ .
T Consensus       743 ~~-------~f~~l~~~~~~~~~~~r~l~~----~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~  811 (889)
T KOG4658|consen  743 LL-------CFPNLSKVSILNCHMLRDLTW----LLFAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRM  811 (889)
T ss_pred             hh-------hHHHHHHHHhhccccccccch----hhccCcccEEEEecccccccCCCHHHHhhhcccEEeccccccccee
Confidence            00       112222233333332222221    2335788888888887766543321111     12346666666 4


Q ss_pred             cccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecc
Q 038494          825 LYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASC  882 (1209)
Q Consensus       825 l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c  882 (1209)
                      +.+...+..+.+.+++    ++.|+.+.+..||++..+         |.+.++.+.+|
T Consensus       812 ~~~l~~l~~i~~~~l~----~~~l~~~~ve~~p~l~~~---------P~~~~~~i~~~  856 (889)
T KOG4658|consen  812 LCSLGGLPQLYWLPLS----FLKLEELIVEECPKLGKL---------PLLSTLTIVGC  856 (889)
T ss_pred             eecCCCCceeEecccC----ccchhheehhcCcccccC---------ccccccceecc
Confidence            6666666666555543    456888888888877765         44556666665

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.96  E-value=1.3e-08  Score=114.16  Aligned_cols=265  Identities=16%  Similarity=0.165  Sum_probs=146.0

Q ss_pred             ccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..+|+|++..++.|..++.     ......+.++|++|+|||+||+.+++.....  +   ..+..+.......+. ..+
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~~~l~-~~l   76 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEKPGDLA-AIL   76 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCchhHH-HHH
Confidence            4679999999999998886     2335568899999999999999999887542  2   122222111222222 222


Q ss_pred             HHhCCCC----CCCCC-hHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          233 SDLDLNF----DLNDS-KPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       233 ~~l~~~~----~~~~~-~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      ..++...    ++.+. .......+...+. +.+..+|+|+..+...+...   .+           +.+-|..||+...
T Consensus        77 ~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~-~~~~~~v~~~~~~~~~~~~~---~~-----------~~~li~~t~~~~~  141 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSPAVEELLYPAME-DFRLDIVIGKGPSARSVRLD---LP-----------PFTLVGATTRAGM  141 (305)
T ss_pred             HhcccCCEEEEehHhhhCHHHHHHhhHHHh-hhheeeeeccCccccceeec---CC-----------CeEEEEecCCccc
Confidence            2332211    00000 0122223333333 34455666665554433321   11           3344556676644


Q ss_pred             hhcccCC-cceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHh------cC---Chh
Q 038494          308 LLTNDMN-SQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK------NK---KLP  377 (1209)
Q Consensus       308 v~~~~~~-~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~------~~---~~~  377 (1209)
                      +...... ....+.+++++.+|..+++.+.+.... ..-..+.+..|++.|+|.|-.+..+...+.      ..   +.+
T Consensus       142 l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~-~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~  220 (305)
T TIGR00635       142 LTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLN-VEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRD  220 (305)
T ss_pred             cCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHH
Confidence            3321111 235689999999999999998876322 222356778999999999976655544321      00   111


Q ss_pred             HHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHH-HhcccCcCccccHHHHHHhhhhhccccccHHHHH
Q 038494          378 VWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFL-LCTLFGEGTPIQVASLLRYGKGLFKNVRTLENAR  456 (1209)
Q Consensus       378 ~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~-~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~  456 (1209)
                      ....++.                   .+...|..+++. .+..+. +++.++.+ ++..+.+.... |     ..    .
T Consensus       221 ~v~~~l~-------------------~l~~~~~~l~~~-~~~~L~al~~~~~~~-~~~~~~ia~~l-g-----~~----~  269 (305)
T TIGR00635       221 IALKALE-------------------MLMIDELGLDEI-DRKLLSVLIEQFQGG-PVGLKTLAAAL-G-----ED----A  269 (305)
T ss_pred             HHHHHHH-------------------HhCCCCCCCCHH-HHHHHHHHHHHhCCC-cccHHHHHHHh-C-----CC----c
Confidence            1111211                   144557788877 555555 55666544 56655554321 1     11    1


Q ss_pred             HHHHHHHH-HHHhcccccCC
Q 038494          457 NRVDALID-NLKASCLLLDG  475 (1209)
Q Consensus       457 ~~~~~~~~-~L~~~~ll~~~  475 (1209)
                      ......++ .|++.+|++..
T Consensus       270 ~~~~~~~e~~Li~~~li~~~  289 (305)
T TIGR00635       270 DTIEDVYEPYLLQIGFLQRT  289 (305)
T ss_pred             chHHHhhhHHHHHcCCcccC
Confidence            22333456 58888998643

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.

>PF05729 NACHT: NACHT domain

Probab=98.96  E-value=3.1e-09  Score=107.71  Aligned_cols=145  Identities=24%  Similarity=0.336  Sum_probs=92.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHH---HHHHHHHHHhCCCCCCCCChHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQ---KIQDKLASDLDLNFDLNDSKPHRAKQLC  253 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~---~l~~~i~~~l~~~~~~~~~~~~~~~~l~  253 (1209)
                      +++.|+|.+|+||||+++.++.+......    +..++|+..+......   .+...+.........      .....+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~------~~~~~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIA------PIEELLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchh------hhHHHHH
Confidence            57899999999999999999998876543    3466777776544322   344444444332211      1111233


Q ss_pred             HHHhcCCeEEEEEeCCCcccC-cc--------ccCCCCCCCCccccccccCCcEEEEeccchhh--hcccCCcceEEEcC
Q 038494          254 QRLTKEKRVLIILDNIWKKLG-LE--------EIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL--LTNDMNSQKIFLIE  322 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~~~~-~~--------~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v--~~~~~~~~~~~~l~  322 (1209)
                      ..+...++++||+|++++... ..        .+...+...      ...++.+++||+|....  ..........+++.
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~------~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~  148 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQ------ALPPGVKLIITSRPRAFPDLRRRLKQAQILELE  148 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhh------ccCCCCeEEEEEcCChHHHHHHhcCCCcEEEEC
Confidence            333457899999999987643 11        111111111      01168999999998765  22233445789999


Q ss_pred             CCCHHHHHHHHHHHh
Q 038494          323 VLSKEEALQFFEKIV  337 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~  337 (1209)
                      +|++++..+++.+..
T Consensus       149 ~~~~~~~~~~~~~~f  163 (166)
T PF05729_consen  149 PFSEEDIKQYLRKYF  163 (166)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998775

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.92  E-value=4.1e-08  Score=110.69  Aligned_cols=275  Identities=15%  Similarity=0.135  Sum_probs=145.3

Q ss_pred             ccccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      ....+|+||++.++.+..++.     ....+.+.|+|++|+|||++|+.+++.....  +   .++....... ...+..
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~~~~~-~~~l~~   95 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGPALEK-PGDLAA   95 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEecccccC-hHHHHH
Confidence            346789999999999887775     2334678899999999999999999987642  1   1222221111 112223


Q ss_pred             HHHHhCCCC----CCCCC-hHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          231 LASDLDLNF----DLNDS-KPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       231 i~~~l~~~~----~~~~~-~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      ++..++...    ++.+. .....+.+...+. +.+..+|+|+..+...+..   .++           +.+-|..|++.
T Consensus        96 ~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~~~~l~~~~~~~~~~~---~l~-----------~~~li~at~~~  160 (328)
T PRK00080         96 ILTNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRLDIMIGKGPAARSIRL---DLP-----------PFTLIGATTRA  160 (328)
T ss_pred             HHHhcccCCEEEEecHhhcchHHHHHHHHHHH-hcceeeeeccCccccceee---cCC-----------CceEEeecCCc
Confidence            333332111    00000 0111122222222 3444555555443322211   111           23345556664


Q ss_pred             hhhhcccC-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHHH
Q 038494          306 KHLLTNDM-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALT  384 (1209)
Q Consensus       306 ~~v~~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~~  384 (1209)
                      ..+..... .....+++++++.++..+++.+.+.... ..-..+.+..|++.|+|.|-.+..+...+.     .|.... 
T Consensus       161 ~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~-----~~a~~~-  233 (328)
T PRK00080        161 GLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILG-VEIDEEGALEIARRSRGTPRIANRLLRRVR-----DFAQVK-  233 (328)
T ss_pred             ccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHcCCCchHHHHHHHHHH-----HHHHHc-
Confidence            43322111 1235689999999999999998876322 223356788999999999965544443321     111100 


Q ss_pred             HHhcCCCcccc-CccccceeeeEEecccCCchhHHHHHH-HhcccCcCccccHHHHHHhhhhhccccccHHHHHHHHHHH
Q 038494          385 QLRNSNPREIH-GMDANVCSSIELSYNFLESDEAKSLFL-LCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDAL  462 (1209)
Q Consensus       385 ~l~~~~~~~~~-~~~~~v~~~l~~sy~~L~~~~~k~c~~-~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~~~~~  462 (1209)
                         ...  .+. ..-......+...+..|++. .+..+. ....|+.+ ++..+.+.... |     .....++    +.
T Consensus       234 ---~~~--~I~~~~v~~~l~~~~~~~~~l~~~-~~~~l~~~~~~~~~~-~~~~~~~a~~l-g-----~~~~~~~----~~  296 (328)
T PRK00080        234 ---GDG--VITKEIADKALDMLGVDELGLDEM-DRKYLRTIIEKFGGG-PVGLDTLAAAL-G-----EERDTIE----DV  296 (328)
T ss_pred             ---CCC--CCCHHHHHHHHHHhCCCcCCCCHH-HHHHHHHHHHHcCCC-ceeHHHHHHHH-C-----CCcchHH----HH
Confidence               000  000 00111223345667788877 566665 66677765 67777764331 1     1122223    23


Q ss_pred             HH-HHHhcccccCC
Q 038494          463 ID-NLKASCLLLDG  475 (1209)
Q Consensus       463 ~~-~L~~~~ll~~~  475 (1209)
                      ++ .|++.+|++..
T Consensus       297 ~e~~Li~~~li~~~  310 (328)
T PRK00080        297 YEPYLIQQGFIQRT  310 (328)
T ss_pred             hhHHHHHcCCcccC
Confidence            44 57778988654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.90  E-value=5.8e-09  Score=127.39  Aligned_cols=177  Identities=20%  Similarity=0.297  Sum_probs=133.0

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ++..++.+.+.+|.+..+|... +++|++|++.+|  ....+|..+.   ..|+.|+|++|.+..+|..+.  .+|++|+
T Consensus       197 Ip~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N--~LtsLP~~l~---~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~  268 (754)
T PRK15370        197 IPEQITTLILDNNELKSLPENL-QGNIKTLYANSN--QLTSIPATLP---DTIQEMELSINRITELPERLP--SALQSLD  268 (754)
T ss_pred             cccCCcEEEecCCCCCcCChhh-ccCCCEEECCCC--ccccCChhhh---ccccEEECcCCccCcCChhHh--CCCCEEE
Confidence            5678999999999999888755 469999999988  4556776543   479999999999999998775  5899999


Q ss_pred             ccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccc
Q 038494          597 LDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWD  675 (1209)
Q Consensus       597 l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~  675 (1209)
                      +++|.++.+ ..+.  .+|++|++++|.++.+|..+.  .+|++|++++ +.++.+|.. +  .++|+.|.+++|...  
T Consensus       269 Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~-N~Lt~LP~~-l--~~sL~~L~Ls~N~Lt--  338 (754)
T PRK15370        269 LFHNKISCLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQS-NSLTALPET-L--PPGLKTLEAGENALT--  338 (754)
T ss_pred             CcCCccCccccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcC-CccccCCcc-c--cccceeccccCCccc--
Confidence            999999877 4443  589999999999999987653  4789999998 667777653 2  368889988876421  


Q ss_pred             cccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEE
Q 038494          676 KVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRI  721 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  721 (1209)
                             .....+  .++|+.|+++.+.+..+|..+. ..|+.|.+
T Consensus       339 -------~LP~~l--~~sL~~L~Ls~N~L~~LP~~lp-~~L~~LdL  374 (754)
T PRK15370        339 -------SLPASL--PPELQVLDVSKNQITVLPETLP-PTITTLDV  374 (754)
T ss_pred             -------cCChhh--cCcccEEECCCCCCCcCChhhc-CCcCEEEC
Confidence                   011122  2588999999888776665432 35555554

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

Probab=98.73  E-value=1.6e-07  Score=101.01  Aligned_cols=179  Identities=16%  Similarity=0.255  Sum_probs=111.4

Q ss_pred             ccccccccccchhhHHHHH---HHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHH
Q 038494          150 TEHMQAKDFEAFDSRMKLF---QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQ  225 (1209)
Q Consensus       150 ~~~~~~~~~~~~~gR~~~~---~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~  225 (1209)
                      ..++.|....++||.+..+   .-|..++..+......+||++|+||||||+.++......  |     ..++-.. +++
T Consensus        15 A~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~--f-----~~~sAv~~gvk   87 (436)
T COG2256          15 AERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAA--F-----EALSAVTSGVK   87 (436)
T ss_pred             HHHhCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCc--e-----EEeccccccHH
Confidence            3344555677888876554   335566667778888899999999999999999876543  4     2233222 233


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE--
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL--  301 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv--  301 (1209)
                      ++ +.+                 ++.-.+....+++.+|++|.|...+  +-+.+.+.. .          .|.-|+|  
T Consensus        88 dl-r~i-----------------~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v-E----------~G~iilIGA  138 (436)
T COG2256          88 DL-REI-----------------IEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHV-E----------NGTIILIGA  138 (436)
T ss_pred             HH-HHH-----------------HHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhh-c----------CCeEEEEec
Confidence            32 222                 2222223334789999999998764  333343322 1          6777777  


Q ss_pred             eccchhhh--cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCC-----CC-cchHHHHHHHHHhCCChhHH
Q 038494          302 TSRSKHLL--TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAK-----AS-AFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       302 TtR~~~v~--~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~-----~~-~~~~~~~~i~~~~~glPLai  364 (1209)
                      ||-++...  ........++.+++|+.++-.+++.+.+.....     .. -.++....+++.++|=--+.
T Consensus       139 TTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~a  209 (436)
T COG2256         139 TTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRA  209 (436)
T ss_pred             cCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHH
Confidence            55555321  112356689999999999999999985431111     11 22446667888888865443

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

Probab=98.70  E-value=1.2e-08  Score=100.95  Aligned_cols=104  Identities=25%  Similarity=0.367  Sum_probs=27.4

Q ss_pred             CCCCCcEEEecCccccccccccc-CCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhcc-CCCCCCEEec
Q 038494          565 GTEDLKVLSLSGIHFSSLSSSLG-HLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIG-QLAQLQLLDL  642 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~~lp~~i~-~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~-~L~~L~~L~l  642 (1209)
                      +..++|.|+|.++.|+.+. .++ .+.+|+.|++++|.++.+.++..+++|++|++++|.++.++..+. .+++|++|++
T Consensus        17 n~~~~~~L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L   95 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYL   95 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-
T ss_pred             ccccccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEEC
Confidence            3445566666666665543 243 455666666666666666556666666666666666666554442 4566666666


Q ss_pred             cCCCCCcccCc-hhhcCCCCCcEEECCCC
Q 038494          643 SNCSSLVVIAP-NVISKFSRLEELYMGDS  670 (1209)
Q Consensus       643 ~~~~~l~~~~~-~~l~~L~~L~~L~l~~~  670 (1209)
                      ++ +.+..+.. ..+..+++|+.|++.+|
T Consensus        96 ~~-N~I~~l~~l~~L~~l~~L~~L~L~~N  123 (175)
T PF14580_consen   96 SN-NKISDLNELEPLSSLPKLRVLSLEGN  123 (175)
T ss_dssp             TT-S---SCCCCGGGGG-TT--EEE-TT-
T ss_pred             cC-CcCCChHHhHHHHcCCCcceeeccCC
Confidence            65 34433211 22455666666666554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.70  E-value=1.5e-07  Score=109.36  Aligned_cols=181  Identities=15%  Similarity=0.213  Sum_probs=112.3

Q ss_pred             cccccchhhHHHHHHH---HHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQD---VVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDK  230 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~---l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~  230 (1209)
                      |....+|+|++..+..   +.+++.......+.++|++|+||||+|+.+++.....  |     +.++... ...+ .+.
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~--~-----~~l~a~~~~~~~-ir~   79 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAP--F-----EALSAVTSGVKD-LRE   79 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCC--E-----EEEecccccHHH-HHH
Confidence            3446689999888666   8888887777788999999999999999999876532  2     2222211 1111 111


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE--eccch
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL--TSRSK  306 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv--TtR~~  306 (1209)
                      +.                 .........+++.+|++|+++...  +.+.+...+.           .|..++|  ||.+.
T Consensus        80 ii-----------------~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le-----------~~~iilI~att~n~  131 (413)
T PRK13342         80 VI-----------------EEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE-----------DGTITLIGATTENP  131 (413)
T ss_pred             HH-----------------HHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh-----------cCcEEEEEeCCCCh
Confidence            11                 111112223578999999999763  3333332221           3444444  34433


Q ss_pred             h--hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCC-CC-CcchHHHHHHHHHhCCChhHHHHHHHHH
Q 038494          307 H--LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSA-KA-SAFQPLADEIVGKCGGLPVALSTVANAL  371 (1209)
Q Consensus       307 ~--v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~-~~~~~~~~~i~~~~~glPLai~~~~~~l  371 (1209)
                      .  +..........+.+.+++.++...++.+.+.... .. .-..+..+.|++.++|.+..+..+....
T Consensus       132 ~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~  200 (413)
T PRK13342        132 SFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELA  200 (413)
T ss_pred             hhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            2  1111223457899999999999999998764211 11 2335677889999999988766554443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.70  E-value=7.4e-07  Score=105.27  Aligned_cols=207  Identities=17%  Similarity=0.131  Sum_probs=119.9

Q ss_pred             ccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHhhc---ccCC--EEEEEEcCCCcCHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVMED---KVFD--KVVMAEVTENPDVQKI  227 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~---~~f~--~~~wv~~s~~~~~~~l  227 (1209)
                      ++.+.||++++++|...|..     ....++.|+|.+|+|||+.++.|.+.....   ....  .+++|++..-.+...+
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            34577999999999988862     223567899999999999999999876431   1111  4578888777788888


Q ss_pred             HHHHHHHhCCCCCCC-CChHHHHHHHHHHHhc--CCeEEEEEeCCCcccC--ccccCCCCCCCCccccccccCCcEEEE-
Q 038494          228 QDKLASDLDLNFDLN-DSKPHRAKQLCQRLTK--EKRVLIILDNIWKKLG--LEEIGIPFGDVDEKDRKQDLRRRTIIL-  301 (1209)
Q Consensus       228 ~~~i~~~l~~~~~~~-~~~~~~~~~l~~~l~~--~k~~LlvlDdv~~~~~--~~~l~~~~~~~~~~~~~~~~~~s~ilv-  301 (1209)
                      +..|++++....... ....+....+...+..  +...+||||+++....  -+.+...+.+       ....+++|+| 
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~-------~~~s~SKLiLI  906 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDW-------PTKINSKLVLI  906 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHH-------hhccCCeEEEE
Confidence            899998884433221 1223445555555532  2346999999986531  1111111110       0013455444 


Q ss_pred             -eccchhhhc----cc--CCcceEEEcCCCCHHHHHHHHHHHhCCC---CCCCcchHHHHHHHHHhCCChhHHHHHHHHH
Q 038494          302 -TSRSKHLLT----ND--MNSQKIFLIEVLSKEEALQFFEKIVGNS---AKASAFQPLADEIVGKCGGLPVALSTVANAL  371 (1209)
Q Consensus       302 -TtR~~~v~~----~~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~---~~~~~~~~~~~~i~~~~~glPLai~~~~~~l  371 (1209)
                       +|...+...    ..  .-....+..+|++.+|-.+++..++...   .++..++-+|+.++..-|..-.||.++-...
T Consensus       907 GISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        907 AISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             EecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence             333222111    00  0112346779999999999999988632   1111222233333333445556666554433

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

Probab=98.67  E-value=1.9e-08  Score=99.47  Aligned_cols=131  Identities=24%  Similarity=0.250  Sum_probs=34.2

Q ss_pred             ccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccc-c
Q 038494          532 QELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAI-G  609 (1209)
Q Consensus       532 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i-~  609 (1209)
                      +..+...++.+++.|++.++.  +..+. ..-..+.+|++|++++|.++.++. +..+++|++|++++|.++.+ ..+ .
T Consensus        10 ~~~~~~~n~~~~~~L~L~~n~--I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~~-l~~L~~L~~L~L~~N~I~~i~~~l~~   85 (175)
T PF14580_consen   10 EQIAQYNNPVKLRELNLRGNQ--ISTIE-NLGATLDKLEVLDLSNNQITKLEG-LPGLPRLKTLDLSNNRISSISEGLDK   85 (175)
T ss_dssp             -----------------------------S--TT-TT--EEE-TTS--S--TT-----TT--EEE--SS---S-CHHHHH
T ss_pred             ccccccccccccccccccccc--ccccc-chhhhhcCCCEEECCCCCCccccC-ccChhhhhhcccCCCCCCccccchHH
Confidence            333333344455555555542  22221 111134556666666666665542 55566666666666666555 333 2


Q ss_pred             CCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccCCCCCcccC---chhhcCCCCCcEEEC
Q 038494          610 QLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIA---PNVISKFSRLEELYM  667 (1209)
Q Consensus       610 ~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~---~~~l~~L~~L~~L~l  667 (1209)
                      .+++|++|++++|.+..+.  ..+..+++|++|++.++ .+...+   ...+..+++|+.|+.
T Consensus        86 ~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~N-Pv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   86 NLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGN-PVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             H-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT--GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             hCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCC-cccchhhHHHHHHHHcChhheeCC
Confidence            4566666666666554332  23445566666666652 222211   223556667776654

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.60  E-value=6.1e-07  Score=112.23  Aligned_cols=311  Identities=16%  Similarity=0.224  Sum_probs=176.8

Q ss_pred             hhhHHHHHHHHHHHHh---CCCceEEEEEcCCCChHHHHHHHHHHHHhhc-ccCCEEEEEEcCCCcC---HHHHHH----
Q 038494          161 FDSRMKLFQDVVEALR---NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED-KVFDKVVMAEVTENPD---VQKIQD----  229 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv~~s~~~~---~~~l~~----  229 (1209)
                      ++||+.+++.|...+.   .+...++.+.|.+|||||+++++|......+ ..|-.-.+-.......   ..+.++    
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            6899999999999887   4566799999999999999999999887644 1111111111111111   111222    


Q ss_pred             ---------------HHHHHhCCCCCCC----------------------CChHH-----HHHHHHHHHhcCCeEEEEEe
Q 038494          230 ---------------KLASDLDLNFDLN----------------------DSKPH-----RAKQLCQRLTKEKRVLIILD  267 (1209)
Q Consensus       230 ---------------~i~~~l~~~~~~~----------------------~~~~~-----~~~~l~~~l~~~k~~LlvlD  267 (1209)
                                     .+...++......                      .....     ....+.....+.|+.++|+|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence                           2222222211000                      00011     11223333345679999999


Q ss_pred             CCCcccC--c---cccCCCCCCCCccccccccCCcEEEE--eccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCC
Q 038494          268 NIWKKLG--L---EEIGIPFGDVDEKDRKQDLRRRTIIL--TSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGN  339 (1209)
Q Consensus       268 dv~~~~~--~---~~l~~~~~~~~~~~~~~~~~~s~ilv--TtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~  339 (1209)
                      |+.-.+.  .   +.+.....-+.       -....|..  |.+.. ............+.|.||+..+.-.+.....+.
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~-------~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~  234 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGA-------YRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGC  234 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhh-------hhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCC
Confidence            9954321  1   11111110000       01122333  33332 112222345578999999999999999998874


Q ss_pred             CCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcC-------ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccC
Q 038494          340 SAKASAFQPLADEIVGKCGGLPVALSTVANALKNK-------KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFL  412 (1209)
Q Consensus       340 ~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~-------~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L  412 (1209)
                      ...  -..+..+.|+++..|+|+-+..+-..+...       +...|..-...+..     .... +.|...+..-.+.|
T Consensus       235 ~~~--~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~-----~~~~-~~vv~~l~~rl~kL  306 (849)
T COG3899         235 TKL--LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI-----LATT-DAVVEFLAARLQKL  306 (849)
T ss_pred             ccc--ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC-----chhh-HHHHHHHHHHHhcC
Confidence            322  235677899999999999999998888643       22334332222111     1111 22444566778899


Q ss_pred             CchhHHHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHHHHHHHHHHHHHhcccccCC------CCCCc--e-Ee
Q 038494          413 ESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDG------DAEDE--V-KM  483 (1209)
Q Consensus       413 ~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~------~~~~~--~-~m  483 (1209)
                      |.. .|+.+...|++..  .|+.+.|...++.         ........+.+.|....++-.+      .....  | ..
T Consensus       307 ~~~-t~~Vl~~AA~iG~--~F~l~~La~l~~~---------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~  374 (849)
T COG3899         307 PGT-TREVLKAAACIGN--RFDLDTLAALAED---------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFL  374 (849)
T ss_pred             CHH-HHHHHHHHHHhCc--cCCHHHHHHHHhh---------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhh
Confidence            988 8999999999987  6777777765543         1233344455555555554311      11111  2 56


Q ss_pred             hhHHHHHHHHHhhcc
Q 038494          484 HDVIHVVAVSIASEK  498 (1209)
Q Consensus       484 Hdlv~~~~~~~~~~~  498 (1209)
                      ||.|++.|-....++
T Consensus       375 H~~vqqaaY~~i~~~  389 (849)
T COG3899         375 HDRVQQAAYNLIPES  389 (849)
T ss_pred             HHHHHHHHhccCchh
Confidence            999998876655443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.59  E-value=3.6e-07  Score=96.87  Aligned_cols=155  Identities=14%  Similarity=0.169  Sum_probs=94.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      ...+.+.|+|++|+|||+|++.+++....+  ...+.|+++....   .                     ....+.+.+.
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~~---~---------------------~~~~~~~~~~   90 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLSKSQ---Y---------------------FSPAVLENLE   90 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHHHhh---h---------------------hhHHHHhhcc
Confidence            344678999999999999999999987654  3355677764210   0                     0011222332


Q ss_pred             cCCeEEEEEeCCCcc---cCccc-cCCCCCCCCccccccccCCcEEEEeccch----------hhhcccCCcceEEEcCC
Q 038494          258 KEKRVLIILDNIWKK---LGLEE-IGIPFGDVDEKDRKQDLRRRTIILTSRSK----------HLLTNDMNSQKIFLIEV  323 (1209)
Q Consensus       258 ~~k~~LlvlDdv~~~---~~~~~-l~~~~~~~~~~~~~~~~~~s~ilvTtR~~----------~v~~~~~~~~~~~~l~~  323 (1209)
                        +.-+|++||+|..   ..|+. +...+....       ..|..+||+|.+.          ++... +.....+++++
T Consensus        91 --~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~-------~~~~~illits~~~p~~l~~~~~~L~sR-l~~g~~~~l~~  160 (229)
T PRK06893         91 --QQDLVCLDDLQAVIGNEEWELAIFDLFNRIK-------EQGKTLLLISADCSPHALSIKLPDLASR-LTWGEIYQLND  160 (229)
T ss_pred             --cCCEEEEeChhhhcCChHHHHHHHHHHHHHH-------HcCCcEEEEeCCCChHHccccchhHHHH-HhcCCeeeCCC
Confidence              3359999999975   23432 211121111       0355565544432          22221 23446889999


Q ss_pred             CCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          324 LSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       324 L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      +++++.++++++.+.... -.--+++..-|++++.|-.-++..+-.
T Consensus       161 pd~e~~~~iL~~~a~~~~-l~l~~~v~~~L~~~~~~d~r~l~~~l~  205 (229)
T PRK06893        161 LTDEQKIIVLQRNAYQRG-IELSDEVANFLLKRLDRDMHTLFDALD  205 (229)
T ss_pred             CCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHHHH
Confidence            999999999998886332 222356778899988877665554443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.54  E-value=5.7e-06  Score=97.86  Aligned_cols=181  Identities=17%  Similarity=0.220  Sum_probs=117.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~wv  216 (1209)
                      ...+++|.+..++.|.+++..++. ..+.++|..|+||||+|+.+++....+..                   |..++++
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEI   93 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEM   93 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEe
Confidence            367899999999999999987654 45679999999999999999987753211                   1112333


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      +.+....                      .+.++.+.+...    .++.-++|+|+++...  .++.+...+-...    
T Consensus        94 DAas~rg----------------------VDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP----  147 (830)
T PRK07003         94 DAASNRG----------------------VDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPP----  147 (830)
T ss_pred             ccccccc----------------------HHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcC----
Confidence            2222211                      223333333322    2455689999999774  3555544332222    


Q ss_pred             ccccCCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh-hHHHHHH
Q 038494          291 KQDLRRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP-VALSTVA  368 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-Lai~~~~  368 (1209)
                          .+.++|++|++.. +..........+++..++.++..+.+.+.+.... ..-..+..+.|++.++|.. -|+.++-
T Consensus       148 ----~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg-I~id~eAL~lIA~~A~GsmRdALsLLd  222 (830)
T PRK07003        148 ----PHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEER-IAFEPQALRLLARAAQGSMRDALSLTD  222 (830)
T ss_pred             ----CCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence                4677777777654 3333345567899999999999999998875322 1223567788999998854 4555543

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

Probab=98.52  E-value=1.5e-08  Score=103.05  Aligned_cols=134  Identities=17%  Similarity=0.189  Sum_probs=104.4

Q ss_pred             CCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccC
Q 038494          565 GTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~  644 (1209)
                      ..+.|..||||+|.|+.+.+++.-++.+|.|++++|.+..+.++..|++|++||+++|.+.++-..-.+|-+.++|.+.+
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~  361 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQ  361 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhh
Confidence            45678899999999998888888889999999999998888778889999999999998887766667788888999988


Q ss_pred             CCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCC
Q 038494          645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLP  708 (1209)
Q Consensus       645 ~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~  708 (1209)
                       +.+..+.  ++++|-+|..|++.+|.+.       ....+..+++++-|..+.+.++.+..++
T Consensus       362 -N~iE~LS--GL~KLYSLvnLDl~~N~Ie-------~ldeV~~IG~LPCLE~l~L~~NPl~~~v  415 (490)
T KOG1259|consen  362 -NKIETLS--GLRKLYSLVNLDLSSNQIE-------ELDEVNHIGNLPCLETLRLTGNPLAGSV  415 (490)
T ss_pred             -hhHhhhh--hhHhhhhheeccccccchh-------hHHHhcccccccHHHHHhhcCCCccccc
Confidence             6666653  2788888888888876531       1122345677777777777777665444

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

Probab=98.51  E-value=1.1e-08  Score=108.25  Aligned_cols=123  Identities=24%  Similarity=0.298  Sum_probs=81.8

Q ss_pred             hhhcCCeEEEEccCCCCccCCCcC--CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecC-cccccccc-cccCCC
Q 038494          515 KIIQKGAIAISIPYGDIQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG-IHFSSLSS-SLGHLI  590 (1209)
Q Consensus       515 ~~~~~~~r~l~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~-~~i~~lp~-~i~~l~  590 (1209)
                      .+.|.....+.+..|.|..+|...  .+++||.|+++.|  .+..|.+..|++++.|..|-+.+ |.|+++|. .|+.|.
T Consensus        63 ~~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N--~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~  140 (498)
T KOG4237|consen   63 ANLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKN--NISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLS  140 (498)
T ss_pred             ccCCCcceEEEeccCCcccCChhhccchhhhceeccccc--chhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHH
Confidence            356777788888888888888754  6888888888888  47777777888888776666655 77887775 566666


Q ss_pred             CCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCE
Q 038494          591 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQL  639 (1209)
Q Consensus       591 ~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~  639 (1209)
                      .|+-|.+.-|++.-+  ..+..|++|..|.+..|.+..++. .+..+..+++
T Consensus       141 slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~t  192 (498)
T KOG4237|consen  141 SLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKT  192 (498)
T ss_pred             HHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccch
Confidence            666666666665544  445555555555555555444443 2333333333

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

Probab=98.47  E-value=9.9e-08  Score=108.46  Aligned_cols=135  Identities=21%  Similarity=0.220  Sum_probs=66.8

Q ss_pred             hcCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCC-------c-ccccCCCCCCEEEccCCCCC-ccc
Q 038494          563 FEGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLED-------V-AAIGQLKKLEILSFRYSDIK-QLP  628 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~-------l-~~i~~L~~L~~L~l~~~~~~-~lp  628 (1209)
                      |..+..|++|+++++.++     .++..+...++|++|+++++.+..       + ..+.++++|+.|++++|.+. ..+
T Consensus        19 ~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~   98 (319)
T cd00116          19 LPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGC   98 (319)
T ss_pred             HHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHH
Confidence            445555666666666653     344455556666666666665441       1 34455666666666666554 233


Q ss_pred             hhccCCCC---CCEEeccCCCCCcccC----chhhcCC-CCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEee
Q 038494          629 LEIGQLAQ---LQLLDLSNCSSLVVIA----PNVISKF-SRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ  700 (1209)
Q Consensus       629 ~~i~~L~~---L~~L~l~~~~~l~~~~----~~~l~~L-~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~  700 (1209)
                      ..+..+.+   |++|++++|. +....    ...+..+ ++|++|++++|.....    ........+..+.+|++|+++
T Consensus        99 ~~~~~l~~~~~L~~L~ls~~~-~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~----~~~~~~~~~~~~~~L~~L~l~  173 (319)
T cd00116          99 GVLESLLRSSSLQELKLNNNG-LGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGA----SCEALAKALRANRDLKELNLA  173 (319)
T ss_pred             HHHHHHhccCcccEEEeeCCc-cchHHHHHHHHHHHhCCCCceEEEcCCCcCCch----HHHHHHHHHHhCCCcCEEECc
Confidence            33333333   6666666643 22110    1123344 5666666665532110    011122334455566666655


Q ss_pred             cc
Q 038494          701 VQ  702 (1209)
Q Consensus       701 ~~  702 (1209)
                      .+
T Consensus       174 ~n  175 (319)
T cd00116         174 NN  175 (319)
T ss_pred             CC
Confidence            44

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).

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.46  E-value=2.4e-06  Score=97.75  Aligned_cols=200  Identities=17%  Similarity=0.173  Sum_probs=113.6

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcCH--HHHHH--HHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPDV--QKIQD--KLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~~--~~l~~--~i~  232 (1209)
                      ...++|++..++.+..++..+..+.+.++|++|+||||+|+.+++..... .+. ..+.+++++-...  ..+..  ...
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   92 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD-PWENNFTEFNVADFFDQGKKYLVEDPRFA   92 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc-ccccceEEechhhhhhcchhhhhcCcchh
Confidence            56789999999999999987776778999999999999999999887532 222 2344554331100  00000  000


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhc-----CCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTK-----EKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~-----~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      +.++.............+.+.+....     ..+-+||+||++...  ....+...+....        ..+++|+||..
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~--------~~~~~Il~~~~  164 (337)
T PRK12402         93 HFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYS--------RTCRFIIATRQ  164 (337)
T ss_pred             hhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhcc--------CCCeEEEEeCC
Confidence            00000000000012233333333221     234589999997652  1222222111111        45677777754


Q ss_pred             hh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          306 KH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       306 ~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      .. +..........+++.+++.++...++.+.+..... .-..+.++.+++.++|.+-.+...
T Consensus       165 ~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~-~~~~~al~~l~~~~~gdlr~l~~~  226 (337)
T PRK12402        165 PSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV-DYDDDGLELIAYYAGGDLRKAILT  226 (337)
T ss_pred             hhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            32 22211234467899999999999999887653221 123567889999998876655443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=2.5e-06  Score=102.91  Aligned_cols=180  Identities=13%  Similarity=0.209  Sum_probs=115.2

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceE-EEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNI-IGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~v-i~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~wv  216 (1209)
                      ....++|.+..++.|.+++..++..- +.++|+.|+||||+|+.+++.......                   |..++++
T Consensus        14 tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEi   93 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEV   93 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEe
Confidence            36689999999999999998766654 579999999999999999988754211                   1112222


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~  290 (1209)
                      .......                      .+.++.+.+.+.    .+++-++|+|+++..  ..++.+...+-...    
T Consensus        94 dAas~~k----------------------VDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP----  147 (944)
T PRK14949         94 DAASRTK----------------------VDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPP----  147 (944)
T ss_pred             ccccccC----------------------HHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccC----
Confidence            2211111                      223333333332    356789999999876  34444433332211    


Q ss_pred             ccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          291 KQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                          ...++|++|.+ ..+..........+++.+++.++....+.+.+.... .....+.+..|++.++|.|--+..+
T Consensus       148 ----~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg-I~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        148 ----EHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ-LPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             ----CCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence                45566665554 333322234568999999999999999988775321 2233567789999999988644444

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=1.5e-05  Score=93.47  Aligned_cols=180  Identities=14%  Similarity=0.201  Sum_probs=114.3

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEE
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVM  215 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~w  215 (1209)
                      .....++|.+...+.|..++..++. ..+.++|+.|+||||+|+.+++.......                   |..++.
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviE   91 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIE   91 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEE
Confidence            3467899999999999999987654 57789999999999999999988743211                   111222


Q ss_pred             EEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccc
Q 038494          216 AEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKD  289 (1209)
Q Consensus       216 v~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~  289 (1209)
                      ++.+....                      .+.++.+.....    .+++-++|+|+++...  ..+.+...+-...   
T Consensus        92 IDAAs~~~----------------------VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP---  146 (702)
T PRK14960         92 IDAASRTK----------------------VEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPP---  146 (702)
T ss_pred             ecccccCC----------------------HHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCC---
Confidence            22221111                      233333433331    2566799999998763  3444433322222   


Q ss_pred             cccccCCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          290 RKQDLRRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       290 ~~~~~~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                           .+.++|++|.+.. +..........+++.+++.++..+.+.+.+.... ..-..+....|++.++|-+-.+..
T Consensus       147 -----~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEg-I~id~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        147 -----EHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQ-IAADQDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             -----CCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence                 4566777666532 2222235567899999999999999988775322 222355677899999997754433

>PLN03025 replication factor C subunit; Provisional

Probab=98.44  E-value=1.7e-06  Score=97.05  Aligned_cols=185  Identities=12%  Similarity=0.133  Sum_probs=109.5

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      |....+++|.++.+..|.+++..+..+.+.++|++|+||||+|+.+++..... .|. .++-++.++..+.. ..+.+++
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~-~vr~~i~   86 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGID-VVRNKIK   86 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHH-HHHHHHH
Confidence            34467889999989989888887777778899999999999999999887432 122 22222333332222 1222222


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLT  310 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~  310 (1209)
                      .+.....              .+..++.-++|+|+++...  ....+...+....        ..+++++++.... +..
T Consensus        87 ~~~~~~~--------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~--------~~t~~il~~n~~~~i~~  144 (319)
T PLN03025         87 MFAQKKV--------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYS--------NTTRFALACNTSSKIIE  144 (319)
T ss_pred             HHHhccc--------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhccc--------CCceEEEEeCCccccch
Confidence            1110000              0011356799999998763  2222221111111        4566777665432 211


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      ........+++.++++++....+...+...... -..+....|++.++|-.-.+
T Consensus       145 ~L~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~-i~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        145 PIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVP-YVPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             hHHHhhhcccCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            112334689999999999999998877532221 12456788999998865433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=3.7e-05  Score=90.47  Aligned_cols=191  Identities=15%  Similarity=0.155  Sum_probs=114.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.|..++..+... .+.++|++|+||||+|+.+++.....+.+....|.+.+..        .+....
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~--------~i~~~~   83 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCL--------AVRRGA   83 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhH--------HHhcCC
Confidence            3668899999999999988876654 5589999999999999999988764322222233322110        000000


Q ss_pred             C-----CCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          236 D-----LNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       236 ~-----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      .     .+... ....+.++.+...+.    .+++-++|+|+++...  .++.+...+....        ....+|++|.
T Consensus        84 h~dv~el~~~~-~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~--------~~t~~Il~t~  154 (504)
T PRK14963         84 HPDVLEIDAAS-NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPP--------EHVIFILATT  154 (504)
T ss_pred             CCceEEecccc-cCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCC--------CCEEEEEEcC
Confidence            0     00000 111233344443332    1456799999998652  3444433332222        3445555554


Q ss_pred             c-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          305 S-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       305 ~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      . ..+..........+++.+++.++....+.+.+..... .-..+.+..|++.++|.+--+.
T Consensus       155 ~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi-~i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        155 EPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGR-EAEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             ChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHH
Confidence            3 3333222345678999999999999999987753222 1235678899999999886443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.41  E-value=2.3e-06  Score=91.53  Aligned_cols=176  Identities=14%  Similarity=0.176  Sum_probs=107.3

Q ss_pred             ccchh--hHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          158 FEAFD--SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       158 ~~~~~--gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      .++|+  +.+..++.+.+++.......+.|+|.+|+|||++|+.+++.....  ....++++++.-..      ..    
T Consensus        14 ~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~------~~----   81 (226)
T TIGR03420        14 FDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQ------AD----   81 (226)
T ss_pred             hcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHH------hH----
Confidence            34555  355577778877666666789999999999999999999887532  33456666543211      00    


Q ss_pred             CCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---cc-ccCCCCCCCCccccccccCCcEEEEeccchhhhc-
Q 038494          236 DLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---LE-EIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT-  310 (1209)
Q Consensus       236 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---~~-~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~-  310 (1209)
                                    ..+...+.  +.-+||+||++....   |. .+...+...       ...+.++|+||+...... 
T Consensus        82 --------------~~~~~~~~--~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~-------~~~~~~iIits~~~~~~~~  138 (226)
T TIGR03420        82 --------------PEVLEGLE--QADLVCLDDVEAIAGQPEWQEALFHLYNRV-------REAGGRLLIAGRAAPAQLP  138 (226)
T ss_pred             --------------HHHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHH-------HHcCCeEEEECCCChHHCC
Confidence                          11112222  234899999987632   22 222111110       013457888887542110 


Q ss_pred             -------ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          311 -------NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       311 -------~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                             ........+++++++.+|...++...+.... ..-..+..+.|++.++|.|..+.-+..
T Consensus       139 ~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~-~~~~~~~l~~L~~~~~gn~r~L~~~l~  203 (226)
T TIGR03420       139 LRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG-LQLPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             cccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHHHH
Confidence                   0111246799999999999999987653211 222356678888889999887776643

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.

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

Probab=98.41  E-value=1.4e-08  Score=112.55  Aligned_cols=124  Identities=25%  Similarity=0.349  Sum_probs=59.7

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEE
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILS  618 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~  618 (1209)
                      +..|..|+++.|  ....+|..++  .--|++|-+++|.++.+|+.|+.+.+|..|+.+.|.+..+ ..++.+..|+.|.
T Consensus       120 L~~lt~l~ls~N--qlS~lp~~lC--~lpLkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~  195 (722)
T KOG0532|consen  120 LEALTFLDLSSN--QLSHLPDGLC--DLPLKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLN  195 (722)
T ss_pred             hhHHHHhhhccc--hhhcCChhhh--cCcceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHH
Confidence            344444444444  2333333331  2235555555555555555555555555555555555444 4455555555555


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +++|++..+|..+..|+ |..||++. +++..+|-. |.+|+.|++|.+.+|
T Consensus       196 vrRn~l~~lp~El~~Lp-Li~lDfSc-Nkis~iPv~-fr~m~~Lq~l~LenN  244 (722)
T KOG0532|consen  196 VRRNHLEDLPEELCSLP-LIRLDFSC-NKISYLPVD-FRKMRHLQVLQLENN  244 (722)
T ss_pred             HhhhhhhhCCHHHhCCc-eeeeeccc-Cceeecchh-hhhhhhheeeeeccC
Confidence            55555555555544322 45555443 445444433 455555555555443

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

Probab=98.40  E-value=1.4e-07  Score=107.30  Aligned_cols=263  Identities=18%  Similarity=0.067  Sum_probs=143.8

Q ss_pred             EEEecCcccc--cccccccCCCCCcEEeccCcccCC-----c-ccccCCCCCCEEEccCCCCCc-------cchhccCCC
Q 038494          571 VLSLSGIHFS--SLSSSLGHLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRYSDIKQ-------LPLEIGQLA  635 (1209)
Q Consensus       571 ~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~l~~-----l-~~i~~L~~L~~L~l~~~~~~~-------lp~~i~~L~  635 (1209)
                      .|+|.++.++  ..+..+..+.+|+.|++++|.++.     + ..+...++|++|+++++.+..       ++..+.+++
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~   81 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGC   81 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcC
Confidence            3566666664  445566778889999999999743     3 456677889999999876552       334567788


Q ss_pred             CCCEEeccCCCCCcccCchhhcCCCC---CcEEECCCCCCccccccCCCccchhhhCCC-CCCCEEEeeccCCCCCCccc
Q 038494          636 QLQLLDLSNCSSLVVIAPNVISKFSR---LEELYMGDSFPQWDKVEGGSNASLAELKGL-SKLTTLEIQVQDAQMLPQDL  711 (1209)
Q Consensus       636 ~L~~L~l~~~~~l~~~~~~~l~~L~~---L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l-~~L~~L~l~~~~~~~~~~~~  711 (1209)
                      +|+.|++++|...... ...+..+.+   |++|++++|....    .........+..+ ++|+.|+++.+.......  
T Consensus        82 ~L~~L~l~~~~~~~~~-~~~~~~l~~~~~L~~L~ls~~~~~~----~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~--  154 (319)
T cd00116          82 GLQELDLSDNALGPDG-CGVLESLLRSSSLQELKLNNNGLGD----RGLRLLAKGLKDLPPALEKLVLGRNRLEGASC--  154 (319)
T ss_pred             ceeEEEccCCCCChhH-HHHHHHHhccCcccEEEeeCCccch----HHHHHHHHHHHhCCCCceEEEcCCCcCCchHH--
Confidence            9999999985433222 233444444   9999988764211    0111122345566 788888887765431100  


Q ss_pred             ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccc-cCCCCccC
Q 038494          712 VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHEL-DDGEGFPR  790 (1209)
Q Consensus       712 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l-~~~~~l~~  790 (1209)
                                                              ..........+.++.|++.++.-.......+ ..+..+++
T Consensus       155 ----------------------------------------~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~  194 (319)
T cd00116         155 ----------------------------------------EALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCN  194 (319)
T ss_pred             ----------------------------------------HHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCC
Confidence                                                    0000011112345555554432111100000 11233467


Q ss_pred             CcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccc--cccCCccEEEEecCCCcccc---ccH
Q 038494          791 LKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLRED--QFFSNLKIIEVESCDKLKHL---FSF  865 (1209)
Q Consensus       791 L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~--~~l~~L~~L~l~~c~~l~~l---~~~  865 (1209)
                      |++|++++|..... ...........+++|+.|++++| .+++.....+...  ...+.|++|++++|. ++..   +..
T Consensus       195 L~~L~L~~n~i~~~-~~~~l~~~~~~~~~L~~L~ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~-i~~~~~~~l~  271 (319)
T cd00116         195 LEVLDLNNNGLTDE-GASALAETLASLKSLEVLNLGDN-NLTDAGAAALASALLSPNISLLTLSLSCND-ITDDGAKDLA  271 (319)
T ss_pred             CCEEeccCCccChH-HHHHHHHHhcccCCCCEEecCCC-cCchHHHHHHHHHHhccCCCceEEEccCCC-CCcHHHHHHH
Confidence            88888887752110 00000002334678888888885 4444322221110  013789999999883 3311   111


Q ss_pred             HHHhhcccccEEEEeccc
Q 038494          866 SIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       866 ~~~~~l~~L~~L~l~~c~  883 (1209)
                      ..+..+++|+.++++++.
T Consensus       272 ~~~~~~~~L~~l~l~~N~  289 (319)
T cd00116         272 EVLAEKESLLELDLRGNK  289 (319)
T ss_pred             HHHhcCCCccEEECCCCC
Confidence            234455788888888763

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=98.40  E-value=3.8e-08  Score=100.13  Aligned_cols=123  Identities=24%  Similarity=0.305  Sum_probs=78.2

Q ss_pred             cCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          518 QKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      |+.+..+.+++|.|..+..+. -.|++|.|++++|+  +..+..  +..+.+|..||||+|.++++-..=.+|-|.+.|.
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~--i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR--IRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccc--eeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            445566666677666666554 35677777777663  333332  3556677777777776666555445566667777


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccC
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~  644 (1209)
                      |++|.+..++++++|.+|.+||+++|++..+-  .+|++|+.|+++.+.+
T Consensus       359 La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~  408 (490)
T KOG1259|consen  359 LAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTG  408 (490)
T ss_pred             hhhhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcC
Confidence            77777776777777777777777777666442  3466777777766666

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=3.1e-06  Score=98.76  Aligned_cols=197  Identities=12%  Similarity=0.178  Sum_probs=115.5

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccC--CEEEEEEcCCCcCHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVF--DKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ...+++|.+..++.|.+++..++. ..+.++|..|+||||+|+.+++.......-  ....    +.........+.|..
T Consensus        14 tFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~----~~PCG~C~sC~~I~a   89 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT----AQPCGQCRACTEIDA   89 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC----CCCCcccHHHHHHHc
Confidence            366899999999999999987665 456899999999999999999877531100  0000    000000011111110


Q ss_pred             H-----hCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe
Q 038494          234 D-----LDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       234 ~-----l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      .     +..+... ....+.++.+.+.+.    .++.-++|+|+++...  .++.+...+-...        .+.++|++
T Consensus        90 G~hpDviEIdAas-~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP--------~~v~FILa  160 (700)
T PRK12323         90 GRFVDYIEMDAAS-NRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPP--------EHVKFILA  160 (700)
T ss_pred             CCCCcceEecccc-cCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCC--------CCceEEEE
Confidence            0     0000000 011333444444432    3566799999999773  4455544332222        44555554


Q ss_pred             cc-chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          303 SR-SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       303 tR-~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      |. ...+..........+.+..++.++..+.+.+.+..... ....+..+.|++.++|.|.....+
T Consensus       161 Ttep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi-~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        161 TTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI-AHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             eCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            44 44444333455678999999999999999887653221 122456678999999988644433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=5e-06  Score=94.79  Aligned_cols=195  Identities=13%  Similarity=0.182  Sum_probs=113.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.+..++..++. ..+.++|+.|+||||+|+.+++..........       .+.......+.+....
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~-------~pc~~c~~c~~~~~~~   86 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITS-------NPCRKCIICKEIEKGL   86 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCC-------CCCCCCHHHHHHhcCC
Confidence            356789999999999998886654 46789999999999999999988753211100       0000000111111110


Q ss_pred             CCCC----CCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          236 DLNF----DLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       236 ~~~~----~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      ..+.    .......+.++.+.+.+.    .+++-++|+|+++...  .++.+...+....        ...++|++|.+
T Consensus        87 ~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~--------~~~~fIl~t~~  158 (363)
T PRK14961         87 CLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPP--------QHIKFILATTD  158 (363)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCC--------CCeEEEEEcCC
Confidence            0000    000011233444444432    2355699999998764  3444433333222        45667776654


Q ss_pred             hh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          306 KH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       306 ~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      .. +.....+....+++.+++.++..+.+...+.... ..-.++.++.|++.++|.|-.+...
T Consensus       159 ~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g-~~i~~~al~~ia~~s~G~~R~al~~  220 (363)
T PRK14961        159 VEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKES-IDTDEYALKLIAYHAHGSMRDALNL  220 (363)
T ss_pred             hHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            33 3222234457899999999999998888664322 1223466778999999988644333

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.38  E-value=5.5e-07  Score=97.80  Aligned_cols=291  Identities=22%  Similarity=0.238  Sum_probs=180.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      .+.+.++|.|||||||++-++.+ .+.. +-+.+.++....-.+...+.-.+...++......   +.....+..++. +
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~~~~-~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g---~~~~~~~~~~~~-~   87 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-AASE-YADGVAFVDLAPITDPALVFPTLAGALGLHVQPG---DSAVDTLVRRIG-D   87 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-Hhhh-cccceeeeeccccCchhHhHHHHHhhcccccccc---hHHHHHHHHHHh-h
Confidence            57899999999999999999999 4432 2357777888777788888887777787665432   334445666665 6


Q ss_pred             CeEEEEEeCCCccc-CccccCCCCCCCCccccccccCCcEEEEeccchhhhcccCCcceEEEcCCCCHH-HHHHHHHHHh
Q 038494          260 KRVLIILDNIWKKL-GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKE-EALQFFEKIV  337 (1209)
Q Consensus       260 k~~LlvlDdv~~~~-~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~~~~~l~~L~~~-e~~~lf~~~~  337 (1209)
                      +|.++|+||..... +-..+.-.+-.+.        +.-.++.|+|....    ........+++|+.- ++.++|...+
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~--------~~~~~~atsre~~l----~~ge~~~~~~~L~~~d~a~~lf~~ra  155 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGAC--------PRLAILATSREAIL----VAGEVHRRVPSLSLFDEAIELFVCRA  155 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccc--------hhhhhHHHhHhhhc----ccccccccCCccccCCchhHHHHHHH
Confidence            89999999987652 1111111111111        45568888887643    234456677777654 7899988776


Q ss_pred             CCCC----CCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHHH----HHhcCCCccccCccccceeeeEEec
Q 038494          338 GNSA----KASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALT----QLRNSNPREIHGMDANVCSSIELSY  409 (1209)
Q Consensus       338 ~~~~----~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~~----~l~~~~~~~~~~~~~~v~~~l~~sy  409 (1209)
                      ....    -.......+.+|.++.+|.|++|..+++..+........+.++    .+... .....--.......+.+||
T Consensus       156 ~~~~~~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~  234 (414)
T COG3903         156 VLVALSFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSY  234 (414)
T ss_pred             HHhccceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhh
Confidence            4211    1223356788999999999999999999998765443322222    11111 1111112345678899999


Q ss_pred             ccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHHHHHHHHHHHHHhcccccCC--CCCCceEehhHH
Q 038494          410 NFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDG--DAEDEVKMHDVI  487 (1209)
Q Consensus       410 ~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~--~~~~~~~mHdlv  487 (1209)
                      .-|... .+..|.-++.|...+.-.....  .+-|-     ......-.....+..+++.+++...  .....|+.-+-+
T Consensus       235 ~lLtgw-e~~~~~rLa~~~g~f~~~l~~~--~a~g~-----~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~  306 (414)
T COG3903         235 ALLTGW-ERALFGRLAVFVGGFDLGLALA--VAAGA-----DVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETG  306 (414)
T ss_pred             HhhhhH-HHHHhcchhhhhhhhcccHHHH--HhcCC-----ccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHH
Confidence            999988 7888999999988554432222  12220     0000111122234446667766432  223356666666


Q ss_pred             HHHHHHHhhc
Q 038494          488 HVVAVSIASE  497 (1209)
Q Consensus       488 ~~~~~~~~~~  497 (1209)
                      |.|+..+..+
T Consensus       307 r~YalaeL~r  316 (414)
T COG3903         307 RRYALAELHR  316 (414)
T ss_pred             HHHHHHHHHh
Confidence            7776655543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=7e-06  Score=96.42  Aligned_cols=181  Identities=16%  Similarity=0.217  Sum_probs=111.5

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc-------------------cCCEEEE
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK-------------------VFDKVVM  215 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~~w  215 (1209)
                      ....+++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+++......                   .|..+++
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlie   92 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIE   92 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            3466889999999999999987654 4577999999999999999998764311                   1222333


Q ss_pred             EEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccc
Q 038494          216 AEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKD  289 (1209)
Q Consensus       216 v~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~  289 (1209)
                      +.......+                      +.++.+.+.+.    .+++-++|+|+++...  .++.+...+-...   
T Consensus        93 idaas~~gv----------------------d~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp---  147 (546)
T PRK14957         93 IDAASRTGV----------------------EETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPP---  147 (546)
T ss_pred             eecccccCH----------------------HHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCC---
Confidence            332222222                      22222322222    2466799999998653  3444433332222   


Q ss_pred             cccccCCcEEEE-eccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-HHHHH
Q 038494          290 RKQDLRRRTIIL-TSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-ALSTV  367 (1209)
Q Consensus       290 ~~~~~~~s~ilv-TtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-ai~~~  367 (1209)
                           ....+|+ ||....+..........+++.+++.++....+.+.+.... ..-.++....|++.++|-+- |+..+
T Consensus       148 -----~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg-i~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        148 -----EYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN-INSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             -----CCceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence                 3555554 5443333322234567899999999998888887654322 22335567789999998654 44444

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.37  E-value=3.5e-06  Score=96.00  Aligned_cols=193  Identities=15%  Similarity=0.147  Sum_probs=115.8

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ....+++|.+..+..|..++..++.. .+.++|+.|+||||+|+.+++..........   ..+.....-    ..+...
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~sC----~~i~~g   87 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTSC----LEITKG   87 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcHH----HHHHcc
Confidence            34678999999999999999877654 5789999999999999999988754221111   111111111    112111


Q ss_pred             hCCCC---CC-CCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEec-
Q 038494          235 LDLNF---DL-NDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTS-  303 (1209)
Q Consensus       235 l~~~~---~~-~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt-  303 (1209)
                      ...+.   +. .....+.++.+.+.+.    .++.-++|+|+++..  ..++.+...+-...        ....+|.+| 
T Consensus        88 ~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp--------~~viFILaTt  159 (484)
T PRK14956         88 ISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPP--------AHIVFILATT  159 (484)
T ss_pred             CCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCC--------CceEEEeecC
Confidence            11110   00 0111333444444433    356679999999976  34555544332211        344444444 


Q ss_pred             cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          304 RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       304 R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      ....+..........|.+.+++.++..+.+.+.+.... ..-..+....|++.++|.+--.
T Consensus       160 e~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg-i~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        160 EFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIEN-VQYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             ChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCChHHHH
Confidence            44444333345567899999999999999988765322 2223567789999999987543

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

Probab=98.36  E-value=1.5e-06  Score=83.86  Aligned_cols=94  Identities=20%  Similarity=0.332  Sum_probs=71.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcc---cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDK---VFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQR  255 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~---~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~  255 (1209)
                      +.+.+.|+|.+|+|||+++++++++.....   .-..++|+.+....+...+...+++.++..........+..+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            346899999999999999999998875311   12467799998888999999999999998877644446677888888


Q ss_pred             HhcCCeEEEEEeCCCcc
Q 038494          256 LTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       256 l~~~k~~LlvlDdv~~~  272 (1209)
                      +.+.+..+||+||++..
T Consensus        83 l~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHHCTEEEEEEETTHHH
T ss_pred             HHhcCCeEEEEeChHhc
Confidence            88666789999999876

>PF13173 AAA_14: AAA domain

Probab=98.35  E-value=1.2e-06  Score=83.56  Aligned_cols=120  Identities=26%  Similarity=0.253  Sum_probs=80.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      .+++.|.|+.|+||||++++++++..   ....++++++.+........                 .+..+.+.+... .
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~-----------------~~~~~~~~~~~~-~   60 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLAD-----------------PDLLEYFLELIK-P   60 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhh-----------------hhhHHHHHHhhc-c
Confidence            36899999999999999999998876   23567788776643211100                 001122222222 3


Q ss_pred             CeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhhc-----ccCCcceEEEcCCCCHHH
Q 038494          260 KRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT-----NDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~-----~~~~~~~~~~l~~L~~~e  328 (1209)
                      ++.+|++|++.....|......+.+..        +..+|++|+.......     ...+....++|.||+..|
T Consensus        61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~--------~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   61 GKKYIFIDEIQYLPDWEDALKFLVDNG--------PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             CCcEEEEehhhhhccHHHHHHHHHHhc--------cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            668899999999988877655555433        5688999998765442     123455688999999877

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

Probab=98.33  E-value=2.5e-08  Score=110.56  Aligned_cols=177  Identities=23%  Similarity=0.292  Sum_probs=121.2

Q ss_pred             eEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccC
Q 038494          521 AIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       521 ~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~  599 (1209)
                      .....++.|.+.++|... .|..|..+.+..|  .+..++..+ .++..|.+|||+.|++..+|..++.|+ |++|-+++
T Consensus        77 t~~aDlsrNR~~elp~~~~~f~~Le~liLy~n--~~r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sN  152 (722)
T KOG0532|consen   77 TVFADLSRNRFSELPEEACAFVSLESLILYHN--CIRTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSN  152 (722)
T ss_pred             hhhhhccccccccCchHHHHHHHHHHHHHHhc--cceecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEec
Confidence            334455556666666544 3555666666555  345555544 677778888888888888887777775 78888888


Q ss_pred             cccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          600 CQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       600 ~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      |+++.+ ..++.+.+|..||.+.|.+..+|..++.+.+|+.|.++. +.+..+|++ +. .-.|..|+++.|.+      
T Consensus       153 Nkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrR-n~l~~lp~E-l~-~LpLi~lDfScNki------  223 (722)
T KOG0532|consen  153 NKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRR-NHLEDLPEE-LC-SLPLIRLDFSCNKI------  223 (722)
T ss_pred             CccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhh-hhhhhCCHH-Hh-CCceeeeecccCce------
Confidence            887777 777777778888888888878888888888888887777 666677766 55 33577777766532      


Q ss_pred             CCCccchhhhCCCCCCCEEEeeccCCCCCCccccc
Q 038494          679 GGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVF  713 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~  713 (1209)
                         ......+.+|..|++|.+.+|.....|..+..
T Consensus       224 ---s~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~  255 (722)
T KOG0532|consen  224 ---SYLPVDFRKMRHLQVLQLENNPLQSPPAQICE  255 (722)
T ss_pred             ---eecchhhhhhhhheeeeeccCCCCCChHHHHh
Confidence               22234567777788888888777777666533

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=1.1e-05  Score=94.30  Aligned_cols=195  Identities=16%  Similarity=0.179  Sum_probs=112.7

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCE-EEEEEcCCCcCHHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDK-VVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ...+++|.+..+..|...+..+.. ..+.++|+.|+||||+|+.+++.......... -.+..+...    .-...+...
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~~i~~~   94 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCISFNNH   94 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHHHHhcC
Confidence            366889999999988887776553 57889999999999999999988753211100 000000000    000111100


Q ss_pred             hCCCC---C-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEE-ec
Q 038494          235 LDLNF---D-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIIL-TS  303 (1209)
Q Consensus       235 l~~~~---~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilv-Tt  303 (1209)
                      ...+.   + ......+.++.+.+...    .+++-++|+|+++..  ..++.+...+....        ....+|+ ||
T Consensus        95 ~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp--------~~~vfI~aTt  166 (507)
T PRK06645         95 NHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPP--------PHIIFIFATT  166 (507)
T ss_pred             CCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcC--------CCEEEEEEeC
Confidence            00000   0 00011233333333332    246678999999876  34555544333222        4555554 44


Q ss_pred             cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          304 RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       304 R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      +...+..........+++.+++.++....+.+.+..... .-..+....|++.++|.+--+
T Consensus       167 e~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi-~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        167 EVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL-KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             ChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHH
Confidence            444444333345578999999999999999988863322 122456778999999976544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=3.9e-05  Score=91.66  Aligned_cols=196  Identities=13%  Similarity=0.160  Sum_probs=115.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.|...+..+... .+.++|..|+||||+|+.+++.......+..       .........+.|...-
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~-------~pCg~C~~C~~i~~g~   86 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITA-------TPCGECDNCREIEQGR   86 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCC-------CCCCCCHHHHHHHcCC
Confidence            3678999999999999998876653 4679999999999999999987754211100       0111111112221110


Q ss_pred             CCCC---CCC-CChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          236 DLNF---DLN-DSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       236 ~~~~---~~~-~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      ..+.   +.. ....+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+-...        ...++|++|.+
T Consensus        87 ~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp--------~~v~FIL~Tt~  158 (647)
T PRK07994         87 FVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP--------EHVKFLLATTD  158 (647)
T ss_pred             CCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCC--------CCeEEEEecCC
Confidence            0000   000 011334444444433    3566799999998763  3444433222211        34555555544


Q ss_pred             -hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          306 -KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       306 -~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                       ..+..........+.+.+++.++....+.+.+.... .....+....|++.++|.+-.+..+.
T Consensus       159 ~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~-i~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        159 PQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQ-IPFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             ccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             433333334568999999999999999988764222 22234566789999999876444443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=1.3e-05  Score=89.81  Aligned_cols=177  Identities=16%  Similarity=0.238  Sum_probs=114.5

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHh----hcccCCEEEEEEc-CCCcCHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVM----EDKVFDKVVMAEV-TENPDVQKIQDKL  231 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~----~~~~f~~~~wv~~-s~~~~~~~l~~~i  231 (1209)
                      ...++|.+..++.+.+++..+.. ....++|+.|+||||+|+.+++...    ...|+|...|... +....+.++ +++
T Consensus         3 ~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~   81 (313)
T PRK05564          3 FHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNI   81 (313)
T ss_pred             hhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHH
Confidence            34678988889999999986654 5668999999999999999998763    2356676666552 222333332 222


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEeccchhhh
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL  309 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~  309 (1209)
                      .+.+....                . .+++-++|+|+++..  ..++.+...+....        .++.+|++|.+.+..
T Consensus        82 ~~~~~~~p----------------~-~~~~kv~iI~~ad~m~~~a~naLLK~LEepp--------~~t~~il~~~~~~~l  136 (313)
T PRK05564         82 IEEVNKKP----------------Y-EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPP--------KGVFIILLCENLEQI  136 (313)
T ss_pred             HHHHhcCc----------------c-cCCceEEEEechhhcCHHHHHHHHHHhcCCC--------CCeEEEEEeCChHhC
Confidence            22221100                0 134556777776544  45666655554333        678888888765432


Q ss_pred             -cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          310 -TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       310 -~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                       .+.......+.+.++++++....+.+....     ...+.++.++..++|.|..+.
T Consensus       137 l~TI~SRc~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        137 LDTIKSRCQIYKLNRLSKEEIEKFISYKYND-----IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             cHHHHhhceeeeCCCcCHHHHHHHHHHHhcC-----CCHHHHHHHHHHcCCCHHHHH
Confidence             222345679999999999998888766421     123457788999999987554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.31  E-value=1.3e-05  Score=91.03  Aligned_cols=185  Identities=12%  Similarity=0.146  Sum_probs=109.7

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc--CCCcCHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV--TENPDVQKIQDKLAS  233 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~--s~~~~~~~l~~~i~~  233 (1209)
                      ....+++|+++.++.+.+++.....+.+.++|.+|+||||+|+.+++...... +. ..++.+  +.......+ ...+.
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~-~~~i~~~~~~~~~~~~~-~~~i~   90 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WR-ENFLELNASDERGIDVI-RNKIK   90 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-cc-cceEEeccccccchHHH-HHHHH
Confidence            34667899999999999999877777789999999999999999998875432 21 122222  222221111 11111


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLT  310 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~  310 (1209)
                      .+.....               .....+-+|++|+++...  ..+.+...+....        ..+++|+++.... +..
T Consensus        91 ~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~--------~~~~lIl~~~~~~~l~~  147 (319)
T PRK00440         91 EFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYS--------QNTRFILSCNYSSKIID  147 (319)
T ss_pred             HHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCC--------CCCeEEEEeCCccccch
Confidence            1100000               001235689999987652  2223322222212        4556777664322 211


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ........+++.+++.++....+...+..... .-.++.+..+++.++|.+--+...
T Consensus       148 ~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~~~-~i~~~al~~l~~~~~gd~r~~~~~  203 (319)
T PRK00440        148 PIQSRCAVFRFSPLKKEAVAERLRYIAENEGI-EITDDALEAIYYVSEGDMRKAINA  203 (319)
T ss_pred             hHHHHhheeeeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            11223457899999999999998887753221 123567889999999987654443

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.30  E-value=5.4e-05  Score=85.16  Aligned_cols=202  Identities=18%  Similarity=0.177  Sum_probs=128.0

Q ss_pred             cchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      +.+.+|+++++++...|.    .....-+.|+|.+|+|||+.++.+.+..+....=..+++|++..-.+..+++..|++.
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            348899999999998876    2333348999999999999999999998764222227999999999999999999999


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhc-CCeEEEEEeCCCcccCcc--ccCCCCCCCCccccccccCCcEEEE--eccchhhh
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKLGLE--EIGIPFGDVDEKDRKQDLRRRTIIL--TSRSKHLL  309 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~~~--~l~~~~~~~~~~~~~~~~~~s~ilv--TtR~~~v~  309 (1209)
                      ++..........+....+.+.+.. ++.++||||+++....-.  -+-..+....       ...++|+|  .+-+....
T Consensus        97 ~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~-------~~~~~v~vi~i~n~~~~~  169 (366)
T COG1474          97 LGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPG-------ENKVKVSIIAVSNDDKFL  169 (366)
T ss_pred             cCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcc-------ccceeEEEEEEeccHHHH
Confidence            963333233335666777777763 678999999998763321  1111111111       02343333  33332211


Q ss_pred             cc------cCCcceEEEcCCCCHHHHHHHHHHHhCC----CCCCCcchHHHHHHHHHhC-CChhHHHHH
Q 038494          310 TN------DMNSQKIFLIEVLSKEEALQFFEKIVGN----SAKASAFQPLADEIVGKCG-GLPVALSTV  367 (1209)
Q Consensus       310 ~~------~~~~~~~~~l~~L~~~e~~~lf~~~~~~----~~~~~~~~~~~~~i~~~~~-glPLai~~~  367 (1209)
                      ..      ..-....+..+|-+.+|-.+.+..++..    ....++.-+.+..++..-+ -.-.||.++
T Consensus       170 ~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         170 DYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             HHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence            10      0112345889999999999999988752    1222333333444444444 445555554

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=1.2e-05  Score=93.71  Aligned_cols=184  Identities=14%  Similarity=0.229  Sum_probs=110.4

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEE
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVM  215 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~w  215 (1209)
                      .....++|.+.....|...+..+.. ..+.++|++|+||||+|+.+++.......                   +..++.
T Consensus        11 ~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~e   90 (472)
T PRK14962         11 KTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIE   90 (472)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEE
Confidence            3466899999888888888877666 45789999999999999999987643211                   011222


Q ss_pred             EEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccc
Q 038494          216 AEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKD  289 (1209)
Q Consensus       216 v~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~  289 (1209)
                      ++.+......                      .++.+.+...    .+++-++|+|+++...  ..+.+...+....   
T Consensus        91 l~aa~~~gid----------------------~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~---  145 (472)
T PRK14962         91 LDAASNRGID----------------------EIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPP---  145 (472)
T ss_pred             EeCcccCCHH----------------------HHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCC---
Confidence            2322222222                      2222222221    1456799999998652  3333333322211   


Q ss_pred             cccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC-ChhHHHHH
Q 038494          290 RKQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG-LPVALSTV  367 (1209)
Q Consensus       290 ~~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPLai~~~  367 (1209)
                           ....+|++|.+ ..+..........+++.+++.++....+.+.+..... .-..+....|++.++| ++.|+..+
T Consensus       146 -----~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi-~i~~eal~~Ia~~s~GdlR~aln~L  219 (472)
T PRK14962        146 -----SHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTML  219 (472)
T ss_pred             -----CcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHH
Confidence                 23444444433 3333323345678999999999999998887742221 2234667789988865 46666666


Q ss_pred             HHH
Q 038494          368 ANA  370 (1209)
Q Consensus       368 ~~~  370 (1209)
                      -..
T Consensus       220 e~l  222 (472)
T PRK14962        220 EQV  222 (472)
T ss_pred             HHH
Confidence            543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.29  E-value=1.7e-05  Score=88.75  Aligned_cols=198  Identities=13%  Similarity=0.153  Sum_probs=119.2

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhccc--CCEEEEEEcCCCcCHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKV--FDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~--f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      .....++|.++....+...+..+.. ..+.|+|+.|+||||+|..+++..-....  +...   ............+.+.
T Consensus        20 ~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~   96 (351)
T PRK09112         20 SENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIA   96 (351)
T ss_pred             CchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHH
Confidence            3466789999999999999987664 45889999999999999999988754211  1111   0111111112333333


Q ss_pred             HHhC-------CCCCC------CCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccc
Q 038494          233 SDLD-------LNFDL------NDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQD  293 (1209)
Q Consensus       233 ~~l~-------~~~~~------~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~  293 (1209)
                      ..-.       .+.+.      ..-..+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+-...       
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp-------  169 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPP-------  169 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCC-------
Confidence            2211       01000      1112456666776665    3567799999998763  2333322222111       


Q ss_pred             cCCcE-EEEeccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          294 LRRRT-IILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       294 ~~~s~-ilvTtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                       .+.. |++|++...+..........+.+.+++.++..+++.+......   -..+.+..|++.++|.|.....+
T Consensus       170 -~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        170 -ARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             -CCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence             2334 4555444444333334557999999999999999988532211   22456779999999999866544

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.25  E-value=1.2e-05  Score=90.49  Aligned_cols=195  Identities=12%  Similarity=0.097  Sum_probs=116.5

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEE------EEEcCCCcCHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVV------MAEVTENPDVQKIQD  229 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~------wv~~s~~~~~~~l~~  229 (1209)
                      ....++|.++.++.+.+.+..+..+ .+.++|+.|+||+|+|..+++..-.+.......      =..+....   ...+
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---~~c~   93 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---PVAR   93 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---hHHH
Confidence            3567899999999999999876654 588999999999999999998875432111000      00000000   1111


Q ss_pred             HHHHHhCCC---------CC----CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          230 KLASDLDLN---------FD----LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       230 ~i~~~l~~~---------~~----~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      .+...-..+         ..    ...-..++++.+.+.+.    .+.+.++|+||++..+  ....+...+-...    
T Consensus        94 ~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp----  169 (365)
T PRK07471         94 RIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPP----  169 (365)
T ss_pred             HHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCC----
Confidence            111111000         00    01112456666666664    3566799999998763  2333332222211    


Q ss_pred             ccccCCcEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          291 KQDLRRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                          .+..+|++|.+. .+..........+.+.+++.++..+++.+....   .  ..+....+++.++|.|+....+
T Consensus       170 ----~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~--~~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        170 ----ARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---L--PDDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             ----CCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---C--CHHHHHHHHHHcCCCHHHHHHH
Confidence                355666666654 333333455679999999999999999876431   1  1222368899999999865444

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.25  E-value=3.9e-05  Score=81.45  Aligned_cols=192  Identities=16%  Similarity=0.181  Sum_probs=123.3

Q ss_pred             HHHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC----EEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          164 RMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD----KVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       164 R~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~----~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      -.+.++.+.+.+..   ...+-+.|+|.+|+|||+++++++........-+    .|+.|.+....+...++..|+.+++
T Consensus        42 A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   42 AKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            34455666666653   3346789999999999999999998775431111    4777888899999999999999999


Q ss_pred             CCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC------------ccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          237 LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG------------LEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       237 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~------------~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      .+.............+...+..-+--+||+|++.+.-.            +..+...+            .=+-|.|-|+
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL------------~ipiV~vGt~  189 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNEL------------QIPIVGVGTR  189 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhcc------------CCCeEEeccH
Confidence            98766655444444444555544557899999987521            12222222            3455777777


Q ss_pred             chhhhcc----cCCcceEEEcCCCCHHHHHHHHHHHhC-----CCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          305 SKHLLTN----DMNSQKIFLIEVLSKEEALQFFEKIVG-----NSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       305 ~~~v~~~----~~~~~~~~~l~~L~~~e~~~lf~~~~~-----~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ...-+-.    .......+.++.+..++-+.-|.....     .....-...++++.|...++|+.--+..+
T Consensus       190 ~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  190 EAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            6533311    012346778888876654433333221     22222345789999999999987655544

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.24  E-value=4.5e-06  Score=87.79  Aligned_cols=177  Identities=14%  Similarity=0.232  Sum_probs=109.0

Q ss_pred             ccccccchhhHHHHHH---HHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          154 QAKDFEAFDSRMKLFQ---DVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~---~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .+....++||.+..+.   -|.+.++.+..+.+.+||++|+||||||+.++...+...    ..||..|-...-..-.+.
T Consensus       133 RPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~  208 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRD  208 (554)
T ss_pred             CcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHH
Confidence            3444667777665443   355566678889999999999999999999998876543    457777654433333333


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE--eccch
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL--TSRSK  306 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv--TtR~~  306 (1209)
                      |.++-.              . ...+ .++|.+|++|.|..-.  +-+.+.   |...        .|..++|  ||.+.
T Consensus       209 ife~aq--------------~-~~~l-~krkTilFiDEiHRFNksQQD~fL---P~VE--------~G~I~lIGATTENP  261 (554)
T KOG2028|consen  209 IFEQAQ--------------N-EKSL-TKRKTILFIDEIHRFNKSQQDTFL---PHVE--------NGDITLIGATTENP  261 (554)
T ss_pred             HHHHHH--------------H-HHhh-hcceeEEEeHHhhhhhhhhhhccc---ceec--------cCceEEEecccCCC
Confidence            333211              0 1112 2588999999998663  223332   2222        6777777  56554


Q ss_pred             hhh--cccCCcceEEEcCCCCHHHHHHHHHHHhC---CC------CCCC---cchHHHHHHHHHhCCCh
Q 038494          307 HLL--TNDMNSQKIFLIEVLSKEEALQFFEKIVG---NS------AKAS---AFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       307 ~v~--~~~~~~~~~~~l~~L~~~e~~~lf~~~~~---~~------~~~~---~~~~~~~~i~~~~~glP  361 (1209)
                      ..-  ........++-+++|+.++...++.+...   +.      .+.+   -...+..-++..|+|-.
T Consensus       262 SFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  262 SFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             ccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            321  11245668999999999999999988442   11      1111   12335556667777754

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.24  E-value=4.9e-05  Score=76.84  Aligned_cols=184  Identities=19%  Similarity=0.235  Sum_probs=92.1

Q ss_pred             ccccccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHH
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      .|....+|+|.+..+..+.-++.     ++....+.+||++|+||||||.-+++.....  |   .+.+...-....++ 
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~--~---~~~sg~~i~k~~dl-   92 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN--F---KITSGPAIEKAGDL-   92 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT----E---EEEECCC--SCHHH-
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC--e---EeccchhhhhHHHH-
Confidence            34457789999888877654443     2345778999999999999999999998754  3   23332211111211 


Q ss_pred             HHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc---------CccccCC--CCCCCCccccc-cccCC
Q 038494          229 DKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL---------GLEEIGI--PFGDVDEKDRK-QDLRR  296 (1209)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~---------~~~~l~~--~~~~~~~~~~~-~~~~~  296 (1209)
                                           ..+...+.  ++.+|.+|++....         ..|+...  ..+.+..+... -..+.
T Consensus        93 ---------------------~~il~~l~--~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~  149 (233)
T PF05496_consen   93 ---------------------AAILTNLK--EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPP  149 (233)
T ss_dssp             ---------------------HHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE---
T ss_pred             ---------------------HHHHHhcC--CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCC
Confidence                                 12222232  34577778877552         1121111  11111100000 00112


Q ss_pred             -cEEEEeccchhhhcccCCc-ceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          297 -RTIILTSRSKHLLTNDMNS-QKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       297 -s~ilvTtR~~~v~~~~~~~-~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                       +-|=-|||...+....... ..+.+++..+.+|-.++..+.+.-- .-+-.++.+.+|++++.|-|--..-+
T Consensus       150 FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l-~i~i~~~~~~~Ia~rsrGtPRiAnrl  221 (233)
T PF05496_consen  150 FTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARIL-NIEIDEDAAEEIARRSRGTPRIANRL  221 (233)
T ss_dssp             -EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCT-T-EE-HHHHHHHHHCTTTSHHHHHHH
T ss_pred             ceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHh-CCCcCHHHHHHHHHhcCCChHHHHHH
Confidence             2233477765443221222 2456899999999999998876421 22233678899999999999644433

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=1.2e-05  Score=94.28  Aligned_cols=192  Identities=13%  Similarity=0.175  Sum_probs=109.8

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ....+++|++..++.+.+++..+.. +.+.++|+.|+||||+|+.+++......      |... .........+.+...
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~------~~~~-~~Cg~C~sCr~i~~~   85 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLN------PKDG-DCCNSCSVCESINTN   85 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCC------CCCC-CCCcccHHHHHHHcC
Confidence            3466899999999999999876554 4688999999999999999998875422      1111 011111111222111


Q ss_pred             hCCCC---C-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEec-
Q 038494          235 LDLNF---D-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTS-  303 (1209)
Q Consensus       235 l~~~~---~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt-  303 (1209)
                      ...+.   + ......+.++.+.+...    .+++-++|+|+++..  ..+..+...+....        ....+|++| 
T Consensus        86 ~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp--------~~tvfIL~Tt  157 (605)
T PRK05896         86 QSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPP--------KHVVFIFATT  157 (605)
T ss_pred             CCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCC--------CcEEEEEECC
Confidence            11000   0 00011233444443332    124457999999865  23444433222111        344555444 


Q ss_pred             cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          304 RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       304 R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                      ....+..........+++.+++.++....+...+..... .-..+.+..+++.++|.+-.
T Consensus       158 ~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi-~Is~eal~~La~lS~GdlR~  216 (605)
T PRK05896        158 EFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI-KIEDNAIDKIADLADGSLRD  216 (605)
T ss_pred             ChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHH
Confidence            333333222344578999999999999988887643221 12245677899999996643

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.23  E-value=9.4e-06  Score=99.05  Aligned_cols=173  Identities=17%  Similarity=0.260  Sum_probs=101.3

Q ss_pred             cccccchhhHHHHHH---HHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQ---DVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~---~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      +....+|+|++..+.   .+.+.+..+....+.++|++|+||||+|+.+++....  +|..   ++... ....++    
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~--~f~~---lna~~-~~i~di----   93 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRA--HFSS---LNAVL-AGVKDL----   93 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcC--ccee---ehhhh-hhhHHH----
Confidence            444678999988774   5667777777778899999999999999999987643  2311   11110 011110    


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe--ccch
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT--SRSK  306 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT--tR~~  306 (1209)
                                    .+........+. .+++.+||+||++...  +++.+.....           .|..++|+  |.+.
T Consensus        94 --------------r~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE-----------~g~IiLI~aTTenp  148 (725)
T PRK13341         94 --------------RAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE-----------NGTITLIGATTENP  148 (725)
T ss_pred             --------------HHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc-----------CceEEEEEecCCCh
Confidence                          111112211221 1466899999998653  3444432221           34445553  3332


Q ss_pred             h--hhcccCCcceEEEcCCCCHHHHHHHHHHHhCC------CCCCCcchHHHHHHHHHhCCChh
Q 038494          307 H--LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGN------SAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       307 ~--v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~------~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                      .  +..........+.+++++.++...++.+.+..      .....-.++....|++.++|..-
T Consensus       149 ~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        149 YFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             HhhhhhHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            1  11111233567999999999999999887641      11122235566788888877643

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.23  E-value=1.3e-05  Score=94.95  Aligned_cols=180  Identities=12%  Similarity=0.194  Sum_probs=111.1

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccC-------------------CEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVF-------------------DKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-------------------~~~~wv  216 (1209)
                      ...+++|.+..++.|..++..++. ..+.++|..|+||||+|+.+++........                   ..++.+
T Consensus        14 tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEi   93 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEI   93 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEE
Confidence            367899999999999999987664 467899999999999999999876432111                   111122


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      +.+....                      .+.++.+.....    .+++-++|+|+++...  ..+.+...+-...    
T Consensus        94 daAs~~g----------------------Vd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp----  147 (709)
T PRK08691         94 DAASNTG----------------------IDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPP----  147 (709)
T ss_pred             eccccCC----------------------HHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCC----
Confidence            2111111                      223333333221    2466799999998653  2333322222111    


Q ss_pred             ccccCCcEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          291 KQDLRRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                          ...++|++|.+. .+.....+....+.+.+++.++....+.+.+..... .-..+.++.|++.++|.+.-+..+
T Consensus       148 ----~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi-~id~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        148 ----EHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI-AYEPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             ----CCcEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC-CcCHHHHHHHHHHhCCCHHHHHHH
Confidence                455666666543 232222244567889999999999999887753221 223567789999999987544443

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

Probab=98.22  E-value=3.5e-07  Score=98.68  Aligned_cols=189  Identities=22%  Similarity=0.123  Sum_probs=123.6

Q ss_pred             cCCeEEEEccCCCCccCC---CcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc--ccCCCCC
Q 038494          518 QKGAIAISIPYGDIQELP---ERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS--LGHLINL  592 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~---~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~--i~~l~~L  592 (1209)
                      .+++|.+++.++.....+   ....|++++.|+++.|-.........+...+++|+.|+++.|.+...-++  -..+.+|
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~l  199 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHL  199 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhh
Confidence            345677777777665554   23478999999998874222233344568899999999999887643222  2367889


Q ss_pred             cEEeccCcccCCc---ccccCCCCCCEEEccCC-CCCccchhccCCCCCCEEeccCCCCCcccC-chhhcCCCCCcEEEC
Q 038494          593 QTLCLDWCQLEDV---AAIGQLKKLEILSFRYS-DIKQLPLEIGQLAQLQLLDLSNCSSLVVIA-PNVISKFSRLEELYM  667 (1209)
Q Consensus       593 ~~L~l~~~~l~~l---~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~-~~~l~~L~~L~~L~l  667 (1209)
                      +.|.++.|.++.-   ...-.++.|..|++.+| .+..--.....++.|+.|++++++ +..++ ....+.++.|+.|++
T Consensus       200 K~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~-li~~~~~~~~~~l~~L~~Lnl  278 (505)
T KOG3207|consen  200 KQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNN-LIDFDQGYKVGTLPGLNQLNL  278 (505)
T ss_pred             heEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCc-ccccccccccccccchhhhhc
Confidence            9999999987643   55567788999999888 333222234457788999999844 44443 223678888888888


Q ss_pred             CCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCc
Q 038494          668 GDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQ  709 (1209)
Q Consensus       668 ~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~  709 (1209)
                      +.+.+...  ..............++|+.|.+..+.+..++.
T Consensus       279 s~tgi~si--~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~s  318 (505)
T KOG3207|consen  279 SSTGIASI--AEPDVESLDKTHTFPKLEYLNISENNIRDWRS  318 (505)
T ss_pred             cccCcchh--cCCCccchhhhcccccceeeecccCccccccc
Confidence            77654211  11122223345667788888888877755543

>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=98.21  E-value=7.7e-06  Score=80.89  Aligned_cols=59  Identities=20%  Similarity=0.205  Sum_probs=47.0

Q ss_pred             hhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          162 DSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       162 ~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      +||+..+..+...+.....+.+.|+|.+|+|||++++.+++.....  -..++++......
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~   59 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLL   59 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhh
Confidence            3788899999998877667789999999999999999999987532  2356777765543

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=98.21  E-value=1.9e-05  Score=81.25  Aligned_cols=155  Identities=21%  Similarity=0.267  Sum_probs=95.0

Q ss_pred             HHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc--------------------cCCEEEEEEcC-CCcCHHHH
Q 038494          170 DVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK--------------------VFDKVVMAEVT-ENPDVQKI  227 (1209)
Q Consensus       170 ~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~--------------------~f~~~~wv~~s-~~~~~~~l  227 (1209)
                      .+.+.+..++. ..+.++|+.|+|||++|+.+++......                    +.+. .++... ....    
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~----   77 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIK----   77 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCC----
Confidence            45555555555 5788999999999999999998875431                    1121 222111 1111    


Q ss_pred             HHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE
Q 038494          228 QDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL  301 (1209)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv  301 (1209)
                                        .+.++.+.+.+.    .+.+-++|+||++...  .++.+...+....        ..+.+|+
T Consensus        78 ------------------~~~i~~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~--------~~~~~il  131 (188)
T TIGR00678        78 ------------------VDQVRELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPP--------PNTLFIL  131 (188)
T ss_pred             ------------------HHHHHHHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCC--------CCeEEEE
Confidence                              233333333332    2456789999998763  3444433332222        4556666


Q ss_pred             eccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          302 TSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       302 TtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                      +|++. .+..........+++.+++.++..+.+.+. +  .    .++.+..|++.++|.|.
T Consensus       132 ~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~-g--i----~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       132 ITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ-G--I----SEEAAELLLALAGGSPG  186 (188)
T ss_pred             EECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc-C--C----CHHHHHHHHHHcCCCcc
Confidence            66543 222222234578999999999999998886 2  1    24678899999999885

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=0.00011  Score=87.07  Aligned_cols=200  Identities=16%  Similarity=0.195  Sum_probs=113.9

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ....+++|.+..++.|..++..+. ...+.++|+.|+||||+|+.+++..........       ..+..-...+.|...
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~~g   85 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVTQG   85 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHhcC
Confidence            336678999888888888887665 467789999999999999999988753211110       001111111111111


Q ss_pred             hCCCC---C-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          235 LDLNF---D-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       235 l~~~~---~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      ...+.   + ......+.++.+.+.+.    .+++-+||+|+++...  .++.+...+....        ....+|++|.
T Consensus        86 ~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~--------~~~ifILaTt  157 (624)
T PRK14959         86 MHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPP--------ARVTFVLATT  157 (624)
T ss_pred             CCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccC--------CCEEEEEecC
Confidence            00000   0 00001223333333322    2466799999998762  3344433332211        3445555554


Q ss_pred             c-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh-hHHHHHHHHH
Q 038494          305 S-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP-VALSTVANAL  371 (1209)
Q Consensus       305 ~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-Lai~~~~~~l  371 (1209)
                      . ..+..........+++.+++.++....+...+.... ..-..+.+..|++.++|.+ .|+..+...+
T Consensus       158 ~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg-i~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        158 EPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREG-VDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             ChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            4 333322233456889999999999999888664222 1123567788999999854 6776665444

>PTZ00202 tuzin; Provisional

Probab=98.19  E-value=1.7e-05  Score=87.28  Aligned_cols=164  Identities=14%  Similarity=0.175  Sum_probs=102.3

Q ss_pred             cccccchhhHHHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      |.+...|+||+.++..+...|.+   +..+++.|+|++|+|||||++.+.....    + ..++++..   +..++++.+
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr~L  329 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLRSV  329 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHHHH
Confidence            34467899999999999999863   2235889999999999999999986543    1 13333333   679999999


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHh----c-CCeEEEEEe--CCCccc-CccccCCCCCCCCccccccccCCcEEEEec
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLT----K-EKRVLIILD--NIWKKL-GLEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~----~-~k~~LlvlD--dv~~~~-~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                      +++||.+....  ..+..+.+.+.+.    . +++.+||+-  +-.+.. ...+. ..+....        +-|.|++--
T Consensus       330 L~ALGV~p~~~--k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~dr--------r~ch~v~ev  398 (550)
T PTZ00202        330 VKALGVPNVEA--CGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDR--------RLCHVVIEV  398 (550)
T ss_pred             HHHcCCCCccc--HHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccc--------hhheeeeee
Confidence            99999743222  1334444444433    3 566666652  111111 01110 0111111        456677655


Q ss_pred             cchhh--hcccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          304 RSKHL--LTNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       304 R~~~v--~~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      --+..  +......-..|-+++++.++|.++-.+..
T Consensus       399 pleslt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        399 PLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hHhhcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            44432  22233455789999999999999887654

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.19  E-value=3.1e-05  Score=87.98  Aligned_cols=188  Identities=9%  Similarity=0.058  Sum_probs=108.5

Q ss_pred             ccchhhHHHHHHHHHHHHhCCC----------ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDK----------LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~----------~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      ...++|.+..++.|..++..+.          ...+.++|++|+|||++|+.+++.......-    +.++...    ..
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~----~~~Cg~C----~~   75 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD----EPGCGEC----RA   75 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC----CCCCCCC----HH
Confidence            4568899999999999988643          4568899999999999999998876432110    0000000    00


Q ss_pred             HHHHHHHhCCC-----CCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCC
Q 038494          228 QDKLASDLDLN-----FDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRR  296 (1209)
Q Consensus       228 ~~~i~~~l~~~-----~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~  296 (1209)
                      -+.+...-..+     ........+.++.+.+...    .+++-++|+|+++...  ....+...+-...        .+
T Consensus        76 C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~--------~~  147 (394)
T PRK07940         76 CRTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPP--------PR  147 (394)
T ss_pred             HHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCC--------CC
Confidence            00010000000     0000111334444444443    2455688899998763  2233322222211        45


Q ss_pred             cEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          297 RTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       297 s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ..+|++|.+. .+..........+.+.+++.++..+.+.+..+      -..+.+..+++.++|.|.....+
T Consensus       148 ~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~------~~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        148 TVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG------VDPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             CeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC------CCHHHHHHHHHHcCCCHHHHHHH
Confidence            5566655553 44433334567999999999999988875432      11456778999999999755433

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

Probab=98.19  E-value=2.9e-06  Score=89.85  Aligned_cols=93  Identities=17%  Similarity=0.178  Sum_probs=64.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC--cCHHHHHHHHHHHhCCCCCCCCCh-----HHHH-H
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN--PDVQKIQDKLASDLDLNFDLNDSK-----PHRA-K  250 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~--~~~~~l~~~i~~~l~~~~~~~~~~-----~~~~-~  250 (1209)
                      ....+.|+|++|+|||||++.+++....+ +|+.+.|+.+..+  .++.++++.+...+-....+.+..     ...+ .
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999999998765 8999999997766  789999999833321111111110     1111 1


Q ss_pred             HHHHHHhcCCeEEEEEeCCCcc
Q 038494          251 QLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       251 ~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ........+++.++++|++...
T Consensus        94 ~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHHh
Confidence            2222223579999999999765

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.18  E-value=2.3e-05  Score=93.15  Aligned_cols=186  Identities=18%  Similarity=0.192  Sum_probs=112.9

Q ss_pred             cccccchhhHHHHHHHHHHHHhC----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRN----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      |.....++|+++.++.+.+|+..    ...+.+.|+|++|+||||+|+.++++..    |+. +-++.++..+.. ....
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~~-ielnasd~r~~~-~i~~   83 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WEV-IELNASDQRTAD-VIER   83 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCE-EEEcccccccHH-HHHH
Confidence            33466899999999999999873    1257899999999999999999998864    332 333444433222 2222


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC------ccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG------LEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~------~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      ++.......               .+.+.++-+||+|+++....      +..+...+..          .+..||+|+.
T Consensus        84 ~i~~~~~~~---------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~----------~~~~iIli~n  138 (482)
T PRK04195         84 VAGEAATSG---------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK----------AKQPIILTAN  138 (482)
T ss_pred             HHHHhhccC---------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc----------CCCCEEEecc
Confidence            322211100               01112568999999987532      2222221111          3445666664


Q ss_pred             chh-hhc-ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHh
Q 038494          305 SKH-LLT-NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK  372 (1209)
Q Consensus       305 ~~~-v~~-~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~  372 (1209)
                      ... ... ........+.+.+++.++....+.+.+...... -..+....|++.++|-.-.+......+.
T Consensus       139 ~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~-i~~eaL~~Ia~~s~GDlR~ain~Lq~~a  207 (482)
T PRK04195        139 DPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE-CDDEALKEIAERSGGDLRSAINDLQAIA  207 (482)
T ss_pred             CccccchhhHhccceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence            432 111 112345689999999999999988877532221 2256788999999997665554444443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=2.5e-05  Score=90.36  Aligned_cols=177  Identities=15%  Similarity=0.170  Sum_probs=112.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcc-------------------cCCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDK-------------------VFDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~~wv  216 (1209)
                      ...+++|.+..++.|..++..+..+ .+.++|+.|+||||+|+.+++......                   .+..++.+
T Consensus        11 ~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~ei   90 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEI   90 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEE
Confidence            3668899999999898888876654 788999999999999999987643211                   11223344


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      +.+....+.+                      ++.+.+...    .+++-++|+|+++...  ..+.+...+-...    
T Consensus        91 daas~~~vdd----------------------IR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp----  144 (491)
T PRK14964         91 DAASNTSVDD----------------------IKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPA----  144 (491)
T ss_pred             ecccCCCHHH----------------------HHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCC----
Confidence            4433333332                      333333221    2456689999998663  3444433332222    


Q ss_pred             ccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          291 KQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                          +..++|++|.. ..+..........+++.+++.++..+.+.+.+..... .-.++.+..|++.++|.+-.+
T Consensus       145 ----~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi-~i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        145 ----PHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI-EHDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             ----CCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHH
Confidence                45666665543 3443333455678999999999999999887753322 223456778999999877543

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.17  E-value=2.1e-06  Score=88.58  Aligned_cols=48  Identities=21%  Similarity=0.347  Sum_probs=34.9

Q ss_pred             chhhHHHHHHHHHHHHh---CCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          160 AFDSRMKLFQDVVEALR---NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .|+||+++++++.+.+.   ....+.+.|+|.+|+|||+|.++++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38999999999999993   4456899999999999999999999988865

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.17  E-value=3.3e-05  Score=88.97  Aligned_cols=182  Identities=14%  Similarity=0.222  Sum_probs=112.0

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc--------------------cCCEEE
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK--------------------VFDKVV  214 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~--------------------~f~~~~  214 (1209)
                      .....++|.+..++.+.+++..+.. ..+.++|++|+||||+|+.++.......                    +++. .
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~   89 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-I   89 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-E
Confidence            3466789999999999999986654 4678999999999999999998864321                    2222 2


Q ss_pred             EEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCcc
Q 038494          215 MAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEK  288 (1209)
Q Consensus       215 wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~  288 (1209)
                      ++.......                      ...++.+.+.+.    .+++-++|+|+++..  ...+.+...+....  
T Consensus        90 ~~~~~~~~~----------------------~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~--  145 (355)
T TIGR02397        90 EIDAASNNG----------------------VDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPP--  145 (355)
T ss_pred             EeeccccCC----------------------HHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCc--
Confidence            222221111                      122223333222    134568999998765  23333333332211  


Q ss_pred             ccccccCCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          289 DRKQDLRRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                            ..+.+|++|.+.. +..........+++.+++.++..+.+...+..... .-.++.+..+++.++|.|..+...
T Consensus       146 ------~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~-~i~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       146 ------EHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI-KIEDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             ------cceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCChHHHHHH
Confidence                  4556666665443 22222234568899999999999999887653221 122467888999999988766554


Q ss_pred             HH
Q 038494          368 AN  369 (1209)
Q Consensus       368 ~~  369 (1209)
                      ..
T Consensus       219 le  220 (355)
T TIGR02397       219 LD  220 (355)
T ss_pred             HH
Confidence            43

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.17  E-value=3.2e-05  Score=93.82  Aligned_cols=203  Identities=15%  Similarity=0.089  Sum_probs=116.8

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC---CEEEEEEcCCC---cCHHHHHHH-
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF---DKVVMAEVTEN---PDVQKIQDK-  230 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f---~~~~wv~~s~~---~~~~~l~~~-  230 (1209)
                      .+.++|++..+..+.+.+.......+.|+|++|+||||+|+.+++.......+   ...-|+.+...   .+...+... 
T Consensus       153 ~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~l  232 (615)
T TIGR02903       153 FSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPL  232 (615)
T ss_pred             HHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHh
Confidence            55788999999998888876666789999999999999999998877543322   12334444321   122222111 


Q ss_pred             --------------HHHHhCCCC----------------CC-CCChHHHHHHHHHHHhcCCeEEEEEeCCCcc--cCccc
Q 038494          231 --------------LASDLDLNF----------------DL-NDSKPHRAKQLCQRLTKEKRVLIILDNIWKK--LGLEE  277 (1209)
Q Consensus       231 --------------i~~~l~~~~----------------~~-~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~--~~~~~  277 (1209)
                                    .+...+...                ++ ..-.......+.+.+. ++++.++-|+.|..  ..|+.
T Consensus       233 lg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~~~~  311 (615)
T TIGR02903       233 LGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLE-DKRVEFSSSYYDPDDPNVPKY  311 (615)
T ss_pred             cCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHh-hCeEEeecceeccCCcccchh
Confidence                          111111110                00 0111344566677775 57788887766654  35776


Q ss_pred             cCCCCCCCCccccccccCCcEEEE--eccchhhhcc-cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHH
Q 038494          278 IGIPFGDVDEKDRKQDLRRRTIIL--TSRSKHLLTN-DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIV  354 (1209)
Q Consensus       278 l~~~~~~~~~~~~~~~~~~s~ilv--TtR~~~v~~~-~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~  354 (1209)
                      +...+..+.        +...+++  ||++...... .......+.+.+++.+|.+.++.+.+...... -..++.+.|.
T Consensus       312 ik~~~~~~~--------~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~-ls~eal~~L~  382 (615)
T TIGR02903       312 IKKLFEEGA--------PADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH-LAAGVEELIA  382 (615)
T ss_pred             hhhhcccCc--------cceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHH
Confidence            655554433        4444555  5665432211 11234578899999999999999987532111 1134455555


Q ss_pred             HHhCCChhHHHHHHHH
Q 038494          355 GKCGGLPVALSTVANA  370 (1209)
Q Consensus       355 ~~~~glPLai~~~~~~  370 (1209)
                      +....-+-|+..++..
T Consensus       383 ~ys~~gRraln~L~~~  398 (615)
T TIGR02903       383 RYTIEGRKAVNILADV  398 (615)
T ss_pred             HCCCcHHHHHHHHHHH
Confidence            5554445666555433

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=1.8e-05  Score=91.36  Aligned_cols=201  Identities=16%  Similarity=0.173  Sum_probs=115.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE-cCCCcCHHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE-VTENPDVQKIQDKLASD  234 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~-~s~~~~~~~l~~~i~~~  234 (1209)
                      ....++|.+..++.|..++.++..+ .+.++|+.|+||||+|+.+++.......++...|.. .......-..-+.+...
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~   93 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAG   93 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence            3668899999999999999876664 488999999999999999998885432121111111 00111111111111111


Q ss_pred             hCCCC----CCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEec-
Q 038494          235 LDLNF----DLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTS-  303 (1209)
Q Consensus       235 l~~~~----~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt-  303 (1209)
                      ...+.    .......+.++.+.+.+.    .+++-++|+|+++...  .++.+...+....        +.+.+|++| 
T Consensus        94 ~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~--------~~t~~Il~t~  165 (397)
T PRK14955         94 TSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPP--------PHAIFIFATT  165 (397)
T ss_pred             CCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCC--------CCeEEEEEeC
Confidence            11100    001111344445555553    2356689999998663  4544433332222        455555555 


Q ss_pred             cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          304 RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       304 R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      +...+..........+++.+++.++....+...+.... ..-..+.+..|++.++|.+--+..
T Consensus       166 ~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g-~~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        166 ELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG-ISVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             ChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            43333322223346789999999999888888764221 222356788999999997754433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=2.7e-05  Score=92.78  Aligned_cols=196  Identities=13%  Similarity=0.160  Sum_probs=114.0

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccC--CEEEEEEcCCCcCHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVF--DKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ...+++|.+..++.|..++..+.. ..+.++|..|+||||+|+.+++........  ++..+-    .......-+.|..
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~----pCg~C~~C~~i~~   89 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITAT----PCGVCQACRDIDS   89 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCC----CCCccHHHHHHHc
Confidence            366889999999999999887665 456899999999999999998876532111  111010    1111111111111


Q ss_pred             HhC-----CCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe
Q 038494          234 DLD-----LNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       234 ~l~-----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      .-.     .+.. .....+.++.+.+...    .++.-++|+|+|+...  .++.+...+-...        ...++|++
T Consensus        90 g~h~D~~eldaa-s~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP--------~~~~fIL~  160 (618)
T PRK14951         90 GRFVDYTELDAA-SNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPP--------EYLKFVLA  160 (618)
T ss_pred             CCCCceeecCcc-cccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCC--------CCeEEEEE
Confidence            000     0000 0111334444444432    2455689999999763  3444443332222        45556655


Q ss_pred             ccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          303 SRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       303 tR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      |.+ ..+..........+++.+++.++..+.+.+.+..... .-..+....|++.++|.+--+..
T Consensus       161 Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi-~ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        161 TTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV-PAEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             ECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHH
Confidence            543 3333333355678999999999999999887753222 22245677889999887654433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.14  E-value=6.4e-05  Score=86.17  Aligned_cols=176  Identities=15%  Similarity=0.189  Sum_probs=103.0

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ...++.|+++.++++.+.+..             ...+-+.++|++|+|||++|+.+++.....  |     +.+..   
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~--~-----~~v~~---  189 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT--F-----IRVVG---  189 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC--E-----Eecch---
Confidence            456788999999999987741             123568999999999999999999876532  3     22221   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----------------ccccCCCCCCCCc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----------------LEEIGIPFGDVDE  287 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----------------~~~l~~~~~~~~~  287 (1209)
                       ..+....   ++       ........+.+......+.+|++||++....                +..+...+..   
T Consensus       190 -~~l~~~~---~g-------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~---  255 (364)
T TIGR01242       190 -SELVRKY---IG-------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDG---  255 (364)
T ss_pred             -HHHHHHh---hh-------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhC---
Confidence             1111111   11       0122334444444445678999999986421                0001000000   


Q ss_pred             cccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          288 KDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                         .....+.+||.||..........    .....+.++..+.++..++|..+.......++  .....+++.+.|..
T Consensus       256 ---~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~--~~~~~la~~t~g~s  328 (364)
T TIGR01242       256 ---FDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED--VDLEAIAKMTEGAS  328 (364)
T ss_pred             ---CCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc--CCHHHHHHHcCCCC
Confidence               00114667888887653322111    22457899999999999999988753322221  11357777887764

Many proteins may score above the trusted cutoff because an internal

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.14  E-value=0.00021  Score=78.74  Aligned_cols=208  Identities=15%  Similarity=0.142  Sum_probs=130.2

Q ss_pred             ccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      +...+||+.+++.+.+|+.    ......+-|.|-+|.|||.+...++.+......=-.++++++..-.....++..|..
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~  228 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFS  228 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHH
Confidence            5578899999999999986    345678999999999999999999988865322225577777665677788888887


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCC-eEEEEEeCCCcccC--ccccCCCCCCCCccccccccCCcEEEEec-------
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEK-RVLIILDNIWKKLG--LEEIGIPFGDVDEKDRKQDLRRRTIILTS-------  303 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k-~~LlvlDdv~~~~~--~~~l~~~~~~~~~~~~~~~~~~s~ilvTt-------  303 (1209)
                      .+-...............+.++..+.+ .+|+|+|.++....  -..+...|-+..       .+++++|+.-       
T Consensus       229 ~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~-------lp~sr~iLiGiANslDl  301 (529)
T KOG2227|consen  229 SLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPK-------LPNSRIILIGIANSLDL  301 (529)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhccc-------CCcceeeeeeehhhhhH
Confidence            772222222221334455666666544 79999999986521  111111111100       1455544421       


Q ss_pred             --cchhhhcc-cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHh
Q 038494          304 --RSKHLLTN-DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK  372 (1209)
Q Consensus       304 --R~~~v~~~-~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~  372 (1209)
                        |--.-... ..-....+..+|.+.++-.++|..+.............++-+++|+.|.---++.+-.+.+
T Consensus       302 TdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  302 TDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             HHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence              11111110 1234568889999999999999999875554555555666677777665554544444444

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.13  E-value=3.9e-05  Score=81.71  Aligned_cols=175  Identities=14%  Similarity=0.108  Sum_probs=103.4

Q ss_pred             cchh-h-HHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          159 EAFD-S-RMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       159 ~~~~-g-R~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ++|+ | -...+..+.++......+.+.|+|++|+|||+|++.+++.....  -..+.++++.....             
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~-------------   86 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLDKRAW-------------   86 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhh-------------
Confidence            3454 4 23345555555555555789999999999999999999887643  34566776643100             


Q ss_pred             CCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc---Ccccc-CCCCCCCCccccccccCC-cEEEEeccchhhhc-
Q 038494          237 LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL---GLEEI-GIPFGDVDEKDRKQDLRR-RTIILTSRSKHLLT-  310 (1209)
Q Consensus       237 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~---~~~~l-~~~~~~~~~~~~~~~~~~-s~ilvTtR~~~v~~-  310 (1209)
                                 ....+.+.+.  +--+|++||+....   .|+.. ...+....       ..| .++|+||+.....- 
T Consensus        87 -----------~~~~~~~~~~--~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~-------e~g~~~li~ts~~~p~~l~  146 (235)
T PRK08084         87 -----------FVPEVLEGME--QLSLVCIDNIECIAGDELWEMAIFDLYNRIL-------ESGRTRLLITGDRPPRQLN  146 (235)
T ss_pred             -----------hhHHHHHHhh--hCCEEEEeChhhhcCCHHHHHHHHHHHHHHH-------HcCCCeEEEeCCCChHHcC
Confidence                       0111222232  12478999997652   33321 11111100       023 47999998653221 


Q ss_pred             -------ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          311 -------NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       311 -------~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                             ..+....+++++++++++-.+++.+++.... -.--+++..-|++.+.|..-++..+-.
T Consensus       147 ~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~-~~l~~~v~~~L~~~~~~d~r~l~~~l~  211 (235)
T PRK08084        147 LGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRG-FELPEDVGRFLLKRLDREMRTLFMTLD  211 (235)
T ss_pred             cccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhhcCCHHHHHHHHH
Confidence                   0123446899999999999999988664321 222357788888888877655554433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.13  E-value=0.00026  Score=87.82  Aligned_cols=179  Identities=13%  Similarity=0.173  Sum_probs=111.8

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCC---------------------EEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFD---------------------KVV  214 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~---------------------~~~  214 (1209)
                      ...+++|.+..++.|..++..++.. .+.++|..|+||||+|+.+++.......+.                     .++
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~   92 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVT   92 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEE
Confidence            3668999999999999999876654 578999999999999999998875321110                     112


Q ss_pred             EEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcc
Q 038494          215 MAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEK  288 (1209)
Q Consensus       215 wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~  288 (1209)
                      +++......                      .+.++.+.+.+.    .++.-++|+|+++...  .++.|...+..-.  
T Consensus        93 eidaas~~~----------------------Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP--  148 (824)
T PRK07764         93 EIDAASHGG----------------------VDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPP--  148 (824)
T ss_pred             EecccccCC----------------------HHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCC--
Confidence            222111111                      233334433322    2455689999998763  3444433333222  


Q ss_pred             ccccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          289 DRKQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                            ..+.+|++|.+ ..+..........|++..++.++..+.+.+.+.... ..-..+....|++.++|.+..+..
T Consensus       149 ------~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EG-v~id~eal~lLa~~sgGdlR~Al~  220 (824)
T PRK07764        149 ------EHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEG-VPVEPGVLPLVIRAGGGSVRDSLS  220 (824)
T ss_pred             ------CCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence                  45556655543 334333335567899999999999988888764222 112345667899999998754433

>PRK08727 hypothetical protein; Validated

Probab=98.13  E-value=2.6e-05  Score=82.85  Aligned_cols=171  Identities=13%  Similarity=0.092  Sum_probs=100.0

Q ss_pred             ccchhhHHH-HHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          158 FEAFDSRMK-LFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       158 ~~~~~gR~~-~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      .+.|++... .+..+...........+.|+|.+|+|||+|++.+++....+  ...+.|+++.+      ...       
T Consensus        18 f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~------~~~-------   82 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQA------AAG-------   82 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHHH------hhh-------
Confidence            445654332 33333333333334579999999999999999999887654  23556676432      111       


Q ss_pred             CCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---ccc-cCCCCCCCCccccccccCCcEEEEeccchhhhc--
Q 038494          237 LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---LEE-IGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT--  310 (1209)
Q Consensus       237 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---~~~-l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~--  310 (1209)
                                 ......+.+.  +.-+||+||++....   |.. +...+...       -.+|..+|+|++...-.-  
T Consensus        83 -----------~~~~~~~~l~--~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~-------~~~~~~vI~ts~~~p~~l~~  142 (233)
T PRK08727         83 -----------RLRDALEALE--GRSLVALDGLESIAGQREDEVALFDFHNRA-------RAAGITLLYTARQMPDGLAL  142 (233)
T ss_pred             -----------hHHHHHHHHh--cCCEEEEeCcccccCChHHHHHHHHHHHHH-------HHcCCeEEEECCCChhhhhh
Confidence                       1112233343  346999999986532   221 11111100       014667999998642210  


Q ss_pred             ------ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          311 ------NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       311 ------~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                            ..+.....+++++++.++-.+++.+++.... -.-.++....|++.++|-.-.+
T Consensus       143 ~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~-l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        143 VLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG-LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             hhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhCCCCHHHH
Confidence                  0112346899999999999999998765321 2223567778888887655444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=0.00043  Score=82.47  Aligned_cols=196  Identities=14%  Similarity=0.175  Sum_probs=112.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.|..++..+... .+.++|+.|+||||+|+.+++........+   +..+..    -...+.|...-
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~~pCg~----C~~C~~i~~~~   83 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPT---ATPCGV----CESCVALAPNG   83 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---CCcccc----cHHHHHhhccc
Confidence            3668999999999999999876655 468999999999999999998765321111   001110    01111111100


Q ss_pred             -------CCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe
Q 038494          236 -------DLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       236 -------~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                             ..+.. .....+.++.+.+...    .+++-++|+|+++...  ..+.+...+-...        ....+|++
T Consensus        84 ~~~~dvieidaa-s~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp--------~~~~fIL~  154 (584)
T PRK14952         84 PGSIDVVELDAA-SHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPP--------EHLIFIFA  154 (584)
T ss_pred             CCCceEEEeccc-cccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCC--------CCeEEEEE
Confidence                   00000 0011333444443332    2455689999998652  3444433322221        35555554


Q ss_pred             c-cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-HHHHHHH
Q 038494          303 S-RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-ALSTVAN  369 (1209)
Q Consensus       303 t-R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-ai~~~~~  369 (1209)
                      | ....+..........+++.+++.++..+.+.+.+..... .-..+.+..|++..+|-+- |+..+-.
T Consensus       155 tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi-~i~~~al~~Ia~~s~GdlR~aln~Ldq  222 (584)
T PRK14952        155 TTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV-VVDDAVYPLVIRAGGGSPRDTLSVLDQ  222 (584)
T ss_pred             eCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4 444433322345678999999999999888877653221 2224566788999999774 4444433

>PRK09087 hypothetical protein; Validated

Probab=98.10  E-value=6e-05  Score=79.29  Aligned_cols=146  Identities=12%  Similarity=0.067  Sum_probs=88.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..+.+.|+|.+|+|||+|++.+++....       .+++..      .+..                     .....+.+
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~~-------~~i~~~------~~~~---------------------~~~~~~~~   88 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSDA-------LLIHPN------EIGS---------------------DAANAAAE   88 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcCC-------EEecHH------Hcch---------------------HHHHhhhc
Confidence            3467999999999999999988876432       133321      0111                     11112211


Q ss_pred             CCeEEEEEeCCCcccC-ccccCCCCCCCCccccccccCCcEEEEeccchhhh--------cccCCcceEEEcCCCCHHHH
Q 038494          259 EKRVLIILDNIWKKLG-LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL--------TNDMNSQKIFLIEVLSKEEA  329 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~~~-~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~--------~~~~~~~~~~~l~~L~~~e~  329 (1209)
                         -+|++||++.... -+.+...+...       ...|..+|+|++.....        ...+....++++++++.++-
T Consensus        89 ---~~l~iDDi~~~~~~~~~lf~l~n~~-------~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~  158 (226)
T PRK09087         89 ---GPVLIEDIDAGGFDETGLFHLINSV-------RQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALL  158 (226)
T ss_pred             ---CeEEEECCCCCCCCHHHHHHHHHHH-------HhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHH
Confidence               3788899975421 11111111100       11467799988753211        01124457899999999999


Q ss_pred             HHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          330 LQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       330 ~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      .+++.+.+.... -.--+++..-|++.+.|..-++..+-.
T Consensus       159 ~~iL~~~~~~~~-~~l~~ev~~~La~~~~r~~~~l~~~l~  197 (226)
T PRK09087        159 SQVIFKLFADRQ-LYVDPHVVYYLVSRMERSLFAAQTIVD  197 (226)
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHHHhhhhHHHHHHHHH
Confidence            999999886321 222367888899999888777765433

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

Probab=98.09  E-value=3.2e-06  Score=98.99  Aligned_cols=77  Identities=40%  Similarity=0.519  Sum_probs=39.3

Q ss_pred             CCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccC
Q 038494          568 DLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~  644 (1209)
                      +|+.|+++++.+..+|..++.+++|+.|++++|.+.++ ...+.+..|+.|++++|.+..+|..++.+.+|++|.+++
T Consensus       141 nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~  218 (394)
T COG4886         141 NLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSN  218 (394)
T ss_pred             hcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcC
Confidence            45555555555555544455555555555555555554 333355555555555555555555444444455555554

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=3.2e-05  Score=91.23  Aligned_cols=179  Identities=15%  Similarity=0.188  Sum_probs=111.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~wv  216 (1209)
                      ...+++|-+..++.|..++..+..+ .+.++|+.|+||||+|+.+++.......                   |..++.+
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            3668999999999999999876654 5689999999999999999987753221                   1123333


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      +.+....+                      +.++.+.+.+.    .++.-++|+|+|+...  ..+.+...+-...    
T Consensus        94 daas~~~v----------------------~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp----  147 (509)
T PRK14958         94 DAASRTKV----------------------EDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPP----  147 (509)
T ss_pred             cccccCCH----------------------HHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccC----
Confidence            33222222                      22333333322    2466789999998762  3444433322221    


Q ss_pred             ccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          291 KQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                          ...++|++|.+ ..+..........+++.+++.++....+.+.+...... -..+....|++.++|.+.-+..
T Consensus       148 ----~~~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~-~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        148 ----SHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVE-FENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             ----CCeEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHH
Confidence                45666665544 33332223445678999999999888777766432222 2245667889999987754433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.08  E-value=2.9e-05  Score=92.25  Aligned_cols=177  Identities=14%  Similarity=0.201  Sum_probs=109.7

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhccc-------------------CCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKV-------------------FDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~wv  216 (1209)
                      ...+++|.+..++.+..++..++.. .+.++|+.|+||||+|+.+++.......                   |..++++
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei   93 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEV   93 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEe
Confidence            3667899999999999999876654 5689999999999999999988743211                   1112222


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      ..+....                      .+.++.+.....    .+++-++|+|+++...  ..+.+...+-...    
T Consensus        94 ~~~~~~~----------------------vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp----  147 (527)
T PRK14969         94 DAASNTQ----------------------VDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPP----  147 (527)
T ss_pred             eccccCC----------------------HHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCC----
Confidence            2221111                      233333433332    2466799999998663  2333333322211    


Q ss_pred             ccccCCcEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          291 KQDLRRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                          ....+|++|.+. .+..........+++.+++.++..+.+.+.+.... ....++.++.|++.++|.+--+
T Consensus       148 ----~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg-i~~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        148 ----EHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN-IPFDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             ----CCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence                355566555443 33222223456899999999999988888764222 2223456678999999977533

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.07  E-value=5.5e-05  Score=90.55  Aligned_cols=200  Identities=9%  Similarity=0.135  Sum_probs=116.7

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCC--EEEEEEcCCCcCHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFD--KVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~--~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ....+++|.+..++.|..++..++.. .+.++|+.|+||||+|+.+++.........  +..|-.+.    ...--+.|.
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg----~c~~C~~i~   96 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCG----VGEHCQAIM   96 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCc----ccHHHHHHh
Confidence            34678999999999999999876644 688999999999999999998775321110  00011111    111112222


Q ss_pred             HHhCCCCC----CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe
Q 038494          233 SDLDLNFD----LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       233 ~~l~~~~~----~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      ..-..+..    ......+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+-...        .++.+|++
T Consensus        97 ~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp--------~~~~fIl~  168 (598)
T PRK09111         97 EGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPP--------PHVKFIFA  168 (598)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCC--------CCeEEEEE
Confidence            21111100    00111344445544443    1345689999998663  3344433322221        45666555


Q ss_pred             c-cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          303 S-RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       303 t-R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                      | ....+..........+++..++.++....+.+.+..... .-..+.+..|++.++|.+.-+....
T Consensus       169 tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi-~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        169 TTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV-EVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             eCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4 433343322345678999999999999999887652221 1224677889999999886554443

>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=98.07  E-value=3.3e-06  Score=68.32  Aligned_cols=57  Identities=30%  Similarity=0.314  Sum_probs=24.4

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCc
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWC  600 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~  600 (1209)
                      +|++|++.+|  .+..++...|.++++|++|++++|.++.+|. .|..+++|++|++++|
T Consensus         2 ~L~~L~l~~n--~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNN--KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSS--TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCC--CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            3444444444  2334444444444444444444444444332 3344444444444444

...

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.07  E-value=1.2e-05  Score=88.41  Aligned_cols=101  Identities=17%  Similarity=0.213  Sum_probs=67.6

Q ss_pred             HHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc--CHHHHHHHHHHHhCCCCCCCCCh--
Q 038494          171 VVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP--DVQKIQDKLASDLDLNFDLNDSK--  245 (1209)
Q Consensus       171 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~l~~~i~~~l~~~~~~~~~~--  245 (1209)
                      +++++.. +......|+|++|+||||||+.+|+....+ +|+.++||.+.+..  .+.++++.+...+-....+.+..  
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~  237 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERH  237 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHH
Confidence            4444432 344678899999999999999999999875 89999999999887  78888888763221111111110  


Q ss_pred             ---HHHHHHHHHHH-hcCCeEEEEEeCCCcc
Q 038494          246 ---PHRAKQLCQRL-TKEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ---~~~~~~l~~~l-~~~k~~LlvlDdv~~~  272 (1209)
                         ...+-...+++ ..+++++|++|++...
T Consensus       238 ~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        238 VQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence               11111222222 2579999999999765

>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=98.06  E-value=4.5e-06  Score=67.52  Aligned_cols=58  Identities=28%  Similarity=0.417  Sum_probs=52.8

Q ss_pred             CCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCC
Q 038494          567 EDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDI  624 (1209)
Q Consensus       567 ~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~  624 (1209)
                      ++|++|++++|.++.+|. .+..+++|++|++++|.++.+  ..|.++++|++|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            478999999999999985 789999999999999999988  6789999999999999864

...

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

Probab=98.04  E-value=5.3e-06  Score=97.12  Aligned_cols=174  Identities=26%  Similarity=0.314  Sum_probs=140.6

Q ss_pred             CCeEEEEccCCCCccCCCcCCCC--CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          519 KGAIAISIPYGDIQELPERLECP--QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~--~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ..+..+.+.++.+..++......  +|+.|++.++  .+..++.. +..++.|+.|++++|.+.++|...+.+.+|+.|+
T Consensus       116 ~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N--~i~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~  192 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN--KIESLPSP-LRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLD  192 (394)
T ss_pred             cceeEEecCCcccccCccccccchhhccccccccc--chhhhhhh-hhccccccccccCCchhhhhhhhhhhhhhhhhee
Confidence            56889999999999999877554  8999999998  45555433 4789999999999999999999888999999999


Q ss_pred             ccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccc
Q 038494          597 LDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWD  675 (1209)
Q Consensus       597 l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~  675 (1209)
                      +++|.+..+ ..+..+.+|++|.+++|.+...+..+.++.++..|.+.+ +.+...+ ..++.+.+|+.|+++++...  
T Consensus       193 ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~-n~~~~~~-~~~~~l~~l~~L~~s~n~i~--  268 (394)
T COG4886         193 LSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSN-NKLEDLP-ESIGNLSNLETLDLSNNQIS--  268 (394)
T ss_pred             ccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCC-ceeeecc-chhccccccceecccccccc--
Confidence            999999999 445677889999999997778888899999999998766 5555433 34788999999999876421  


Q ss_pred             cccCCCccchhhhCCCCCCCEEEeeccCCCCC
Q 038494          676 KVEGGSNASLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                              .+..+..+.+++.|+++.+.....
T Consensus       269 --------~i~~~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         269 --------SISSLGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             --------ccccccccCccCEEeccCcccccc
Confidence                    122377788999999987765443

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=0.0001  Score=88.40  Aligned_cols=198  Identities=17%  Similarity=0.201  Sum_probs=112.8

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE-cCCCcCHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE-VTENPDVQKIQDKLAS  233 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~-~s~~~~~~~l~~~i~~  233 (1209)
                      .....++|.+..+..|..++..+.. ..+.++|+.|+||||+|+.+++........+.-.|.. .......-..-+.+..
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~   92 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDA   92 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhc
Confidence            3367899999999999998887665 4588999999999999999998875432221111111 0011111111122211


Q ss_pred             HhCCCC---CC-CCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEec
Q 038494          234 DLDLNF---DL-NDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       234 ~l~~~~---~~-~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                      .-..+.   +. .....+.++.+.+.+.    .+.+-++|+|+++...  ..+.+...+....        ..+.+|++|
T Consensus        93 g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp--------~~tv~IL~t  164 (620)
T PRK14954         93 GTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPP--------PHAIFIFAT  164 (620)
T ss_pred             cCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCC--------CCeEEEEEe
Confidence            111100   00 1111344555555542    2455689999988763  2334433322211        344555444


Q ss_pred             -cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          304 -RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       304 -R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                       +...+..........+++.+++.++....+.+.+.... ..-..+.++.|++.++|..-
T Consensus       165 ~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~eg-i~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        165 TELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEG-IQIDADALQLIARKAQGSMR  223 (620)
T ss_pred             CChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCCCHH
Confidence             43443332335567899999999998888887664221 11235677899999999554

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.98  E-value=0.00015  Score=84.66  Aligned_cols=177  Identities=14%  Similarity=0.174  Sum_probs=107.2

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc---------------------cCCEE
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK---------------------VFDKV  213 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~---------------------~f~~~  213 (1209)
                      ....+++|.+..+..+.+++..+.. ..+.++|+.|+||||+|+.+++......                     +++ .
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~   92 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-V   92 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-e
Confidence            3466899999999999999987665 5678999999999999999998764321                     111 1


Q ss_pred             EEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCc
Q 038494          214 VMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDE  287 (1209)
Q Consensus       214 ~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~  287 (1209)
                      +++.......                      .+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+.... 
T Consensus        93 ~~i~g~~~~g----------------------id~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~-  149 (451)
T PRK06305         93 LEIDGASHRG----------------------IEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPP-  149 (451)
T ss_pred             EEeeccccCC----------------------HHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCC-
Confidence            1111111111                      122222222221    2456789999987652  2333322222211 


Q ss_pred             cccccccCCcEEEEeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          288 KDRKQDLRRRTIILTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                             .+..+|++|.. ..+..........+++.++++++....+.+.+.... ..-..+.+..|++.++|.+--+
T Consensus       150 -------~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg-~~i~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        150 -------QHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG-IETSREALLPIARAAQGSLRDA  219 (451)
T ss_pred             -------CCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence                   35556655533 333222234557899999999999988887664221 1223567889999999976433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.98  E-value=0.00011  Score=88.21  Aligned_cols=191  Identities=14%  Similarity=0.184  Sum_probs=110.1

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH-HH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA-SD  234 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~-~~  234 (1209)
                      ....++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+++..-.....+  .+-.+...       .... ..
T Consensus        16 ~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~--~~~pC~~C-------~~~~~~~   86 (725)
T PRK07133         16 TFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTD--LLEPCQEC-------IENVNNS   86 (725)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCC--CCCchhHH-------HHhhcCC
Confidence            366889999999999999987654 4567999999999999999998764321100  00000000       0000 00


Q ss_pred             ---hCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEE-Eecc
Q 038494          235 ---LDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTII-LTSR  304 (1209)
Q Consensus       235 ---l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~il-vTtR  304 (1209)
                         +.... ......+.++.+.+.+.    .+++-++|+|+++...  .+..+...+-...        ....+| +|++
T Consensus        87 ~Dvieida-asn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP--------~~tifILaTte  157 (725)
T PRK07133         87 LDIIEMDA-ASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPP--------KHVIFILATTE  157 (725)
T ss_pred             CcEEEEec-cccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCC--------CceEEEEEcCC
Confidence               00000 00011334455555443    2466799999998652  3444433222211        344444 4544


Q ss_pred             chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          305 SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       305 ~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      ...+..........+++.+++.++....+...+..... ....+.++.|++.++|-+--+..
T Consensus       158 ~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI-~id~eAl~~LA~lS~GslR~Als  218 (725)
T PRK07133        158 VHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENI-SYEKNALKLIAKLSSGSLRDALS  218 (725)
T ss_pred             hhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHH
Confidence            44443333345578999999999999888876542221 12245677899999987643333

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.00015  Score=83.48  Aligned_cols=178  Identities=15%  Similarity=0.227  Sum_probs=105.6

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhc------ccCCE-EEEEEcCCCcCHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMED------KVFDK-VVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~------~~f~~-~~wv~~s~~~~~~~l~  228 (1209)
                      ...+++|.+..++.+.+++..+.. +.+.++|++|+||||+|+.+++.....      ..|.. ++-+......+.    
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~----   90 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSV----   90 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCH----
Confidence            366789999999999999987654 478899999999999999998876431      11211 111111111111    


Q ss_pred             HHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEe
Q 038494          229 DKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                                        +.+..+.+.+.    .+++-++++|+++...  .++.+...+....        ..+.+|++
T Consensus        91 ------------------~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~--------~~~~~Il~  144 (367)
T PRK14970         91 ------------------DDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPP--------AHAIFILA  144 (367)
T ss_pred             ------------------HHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCC--------CceEEEEE
Confidence                              22222222211    1355689999997653  2444422221111        34455555


Q ss_pred             cc-chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          303 SR-SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       303 tR-~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      |. ...+..........+++.++++++....+...+..... .-..+.++.|++.++|.+-.+.
T Consensus       145 ~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~-~i~~~al~~l~~~~~gdlr~~~  207 (367)
T PRK14970        145 TTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI-KFEDDALHIIAQKADGALRDAL  207 (367)
T ss_pred             eCCcccCCHHHHhcceeEecCCccHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHH
Confidence            53 33332222234568999999999999888887652221 1224677889999998665443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.00014  Score=87.91  Aligned_cols=178  Identities=17%  Similarity=0.221  Sum_probs=110.9

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhc---------------------ccCCEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMED---------------------KVFDKVV  214 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~---------------------~~f~~~~  214 (1209)
                      ....++|.+..++.|..++..+... .+.++|+.|+||||+|+.++......                     .+|+. .
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~   93 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-H   93 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-E
Confidence            3668899999999999999876654 57899999999999999999876421                     12321 2


Q ss_pred             EEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcc
Q 038494          215 MAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEK  288 (1209)
Q Consensus       215 wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~  288 (1209)
                      .++.+....+                      +.++.+...+.    .+++-++|+|+++...  .++.+...+....  
T Consensus        94 ~ld~~~~~~v----------------------d~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp--  149 (614)
T PRK14971         94 ELDAASNNSV----------------------DDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPP--  149 (614)
T ss_pred             EecccccCCH----------------------HHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCC--
Confidence            2222222222                      22233332221    1355688999988763  3444433332221  


Q ss_pred             ccccccCCcEEEE-eccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          289 DRKQDLRRRTIIL-TSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       289 ~~~~~~~~s~ilv-TtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                            .++.+|+ |++...+..........+++.+++.++....+.+.+.... ..-..+.+..|++.++|-.--+..
T Consensus       150 ------~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~eg-i~i~~~al~~La~~s~gdlr~al~  221 (614)
T PRK14971        150 ------SYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEG-ITAEPEALNVIAQKADGGMRDALS  221 (614)
T ss_pred             ------CCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence                  4455555 4444444433345567899999999999999887765322 122345678999999996654433

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

Probab=97.96  E-value=1.8e-06  Score=93.42  Aligned_cols=180  Identities=22%  Similarity=0.217  Sum_probs=124.2

Q ss_pred             hhcCCeEEEEccCCCCccCCCc----CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc--cccccccCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER----LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS--SLSSSLGHL  589 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~----~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~--~lp~~i~~l  589 (1209)
                      .+..++|.+.++.|-++++...    ..+|+|+.|+++.|.. ...+....-..+++|+.|.|+.|.++  ++-.....+
T Consensus       143 k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl-~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~f  221 (505)
T KOG3207|consen  143 KILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRL-SNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTF  221 (505)
T ss_pred             hhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccc-cCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhC
Confidence            4567889999998876655432    2689999999998742 11111112236789999999999887  444556678


Q ss_pred             CCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccCCCCCcccC-ch-----hhcCC
Q 038494          590 INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIA-PN-----VISKF  659 (1209)
Q Consensus       590 ~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~-~~-----~l~~L  659 (1209)
                      ++|..|+|.+|.....  .+..-++.|+.|||++|++..++  ..++.++.|..|+++.| .+.++. +.     ....+
T Consensus       222 Psl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~t-gi~si~~~d~~s~~kt~~f  300 (505)
T KOG3207|consen  222 PSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSST-GIASIAEPDVESLDKTHTF  300 (505)
T ss_pred             CcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhcccc-CcchhcCCCccchhhhccc
Confidence            8999999999963222  55667888999999999888776  45788999999999884 444332 11     13567


Q ss_pred             CCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          660 SRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       660 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      ++|+.|++..|.+       ..-..+.++..+.+|+.|.+.++..
T Consensus       301 ~kL~~L~i~~N~I-------~~w~sl~~l~~l~nlk~l~~~~n~l  338 (505)
T KOG3207|consen  301 PKLEYLNISENNI-------RDWRSLNHLRTLENLKHLRITLNYL  338 (505)
T ss_pred             ccceeeecccCcc-------ccccccchhhccchhhhhhcccccc
Confidence            8999999887643       1112244566667777777665544

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.001  Score=80.50  Aligned_cols=199  Identities=12%  Similarity=0.149  Sum_probs=115.6

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      .....++|.+..+..|..++..++. ..+.++|..|+||||+|+.+++.......... .    ..........+.+...
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-~----~~~Cg~C~~C~~i~~g   87 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-T----PEPCGKCELCRAIAAG   87 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-C----CCCCcccHHHHHHhcC
Confidence            3356788999999999999886553 57789999999999999999998754211110 0    0111122233333322


Q ss_pred             hCCCC----CCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          235 LDLNF----DLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       235 l~~~~----~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      ...+.    .......+.++.+.+...    .+++-++|+|+++...  .++.+...+-...        ....+|++|.
T Consensus        88 ~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp--------~~tvfIL~t~  159 (620)
T PRK14948         88 NALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPP--------PRVVFVLATT  159 (620)
T ss_pred             CCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCC--------cCeEEEEEeC
Confidence            21110    001112344555554443    2455689999998663  3444433332211        3444454444


Q ss_pred             c-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          305 S-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       305 ~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                      + ..+..........+++..++.++....+.+.+...... -..+.+..|++.++|.+..+..+.
T Consensus       160 ~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~-is~~al~~La~~s~G~lr~A~~lL  223 (620)
T PRK14948        160 DPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE-IEPEALTLVAQRSQGGLRDAESLL  223 (620)
T ss_pred             ChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3 33332223455788899999999888887766432211 123567889999999876554443

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.95  E-value=4.4e-05  Score=79.43  Aligned_cols=186  Identities=17%  Similarity=0.161  Sum_probs=118.8

Q ss_pred             ccccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEE-EEEEcCCCcCHHHHHHHH-
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKV-VMAEVTENPDVQKIQDKL-  231 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~-~wv~~s~~~~~~~l~~~i-  231 (1209)
                      .|....+++|.+..++.+.+.+.....+....+|++|.|||+-|+.++...-..+.|.++ .=.++|+.....-+-..+ 
T Consensus        31 rPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik  110 (346)
T KOG0989|consen   31 RPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIK  110 (346)
T ss_pred             CCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhc
Confidence            345577899999999999999988778899999999999999999999988766667644 445666554333111111 


Q ss_pred             --HHHhCCCCCCCCChHHHHHHHHHHHhcCCe-EEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEeccch
Q 038494          232 --ASDLDLNFDLNDSKPHRAKQLCQRLTKEKR-VLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK  306 (1209)
Q Consensus       232 --~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~-~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~  306 (1209)
                        .+...........             .-++ -++|||+++..  +.|..+....-...        ..++.|..+...
T Consensus       111 ~fakl~~~~~~~~~~-------------~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s--------~~trFiLIcnyl  169 (346)
T KOG0989|consen  111 NFAKLTVLLKRSDGY-------------PCPPFKIIILDECDSMTSDAQAALRRTMEDFS--------RTTRFILICNYL  169 (346)
T ss_pred             CHHHHhhccccccCC-------------CCCcceEEEEechhhhhHHHHHHHHHHHhccc--------cceEEEEEcCCh
Confidence              0000000000000             0123 58899999987  57877755443322        455555544433


Q ss_pred             -hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          307 -HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       307 -~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                       .+.........-+..++|.+++...-++..+..+.-+ -..+..+.|++.++|--
T Consensus       170 srii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~-~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  170 SRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVD-IDDDALKLIAKISDGDL  224 (346)
T ss_pred             hhCChHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHcCCcH
Confidence             2222223445678899999999999888887633322 23567779999998853

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.95  E-value=2.3e-05  Score=87.20  Aligned_cols=50  Identities=14%  Similarity=0.349  Sum_probs=28.4

Q ss_pred             ccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeec
Q 038494          918 PSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMI  985 (1209)
Q Consensus       918 ~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~  985 (1209)
                      +++|+.|.+.+|..++.++..          -.++|+.|.+++|.++..++        ++|+.|++.
T Consensus        71 P~sLtsL~Lsnc~nLtsLP~~----------LP~nLe~L~Ls~Cs~L~sLP--------~sLe~L~L~  120 (426)
T PRK15386         71 PNELTEITIENCNNLTTLPGS----------IPEGLEKLTVCHCPEISGLP--------ESVRSLEIK  120 (426)
T ss_pred             CCCCcEEEccCCCCcccCCch----------hhhhhhheEccCcccccccc--------cccceEEeC
Confidence            345666666666666544321          13467777777776665442        346666654

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.95  E-value=0.00018  Score=84.19  Aligned_cols=181  Identities=13%  Similarity=0.191  Sum_probs=111.7

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccC-------------------CEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVF-------------------DKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-------------------~~~~wv  216 (1209)
                      ...+++|-+...+.+..++..+..+ +..++|+.|+||||+|+.+++..-.....                   ..++++
T Consensus        12 ~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~el   91 (535)
T PRK08451         12 HFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEM   91 (535)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEe
Confidence            3668899999999999999876655 56899999999999999999876421111                   012222


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      ..+....+                      +.++.+.....    .+++-++|+|+++...  ..+.+...+-...    
T Consensus        92 daas~~gI----------------------d~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp----  145 (535)
T PRK08451         92 DAASNRGI----------------------DDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPP----  145 (535)
T ss_pred             ccccccCH----------------------HHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcC----
Confidence            22211112                      22222222211    1456789999998663  3333333222211    


Q ss_pred             ccccCCcEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          291 KQDLRRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                          ..+++|++|.+. .+..........+++.+++.++....+.+.+..... .-.++.++.|++.++|.+--+....
T Consensus       146 ----~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi-~i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        146 ----SYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV-SYEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             ----CceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence                456666666553 222222344678999999999999998877653222 2235677899999999885554443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.94  E-value=0.00016  Score=83.20  Aligned_cols=178  Identities=16%  Similarity=0.184  Sum_probs=101.3

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      .+..+.|+++.++++.+.+..             ...+-|.++|++|+|||++|+.+++.....       |+.++.   
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~-------~i~v~~---  198 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-------FIRVVG---  198 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC-------EEEeeh---
Confidence            356788999999999887641             234568899999999999999999876532       222221   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-------------cccCCCCCCCCcccc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-------------EEIGIPFGDVDEKDR  290 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-------------~~l~~~~~~~~~~~~  290 (1209)
                       .++...   ..+       ......+.+.+......+.+|++||++....-             ..+...+....   .
T Consensus       199 -~~l~~~---~~g-------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld---~  264 (389)
T PRK03992        199 -SELVQK---FIG-------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMD---G  264 (389)
T ss_pred             -HHHhHh---hcc-------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhcc---c
Confidence             111111   011       01233444555444456789999999864100             00100000000   0


Q ss_pred             ccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          291 KQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                      .....+..||.||..........    .-...+.+++.+.++-.++|+.+........+  .....+++.+.|.
T Consensus       265 ~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~--~~~~~la~~t~g~  336 (389)
T PRK03992        265 FDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD--VDLEELAELTEGA  336 (389)
T ss_pred             cCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc--CCHHHHHHHcCCC
Confidence            00113556777777654332222    12457999999999999999988753322211  1134666666664

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.92  E-value=0.00021  Score=83.87  Aligned_cols=181  Identities=14%  Similarity=0.177  Sum_probs=109.0

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc-------------------cCCEEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK-------------------VFDKVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~~wv  216 (1209)
                      ....++|.+..+..+..++..+.. ..+.++|+.|+||||+|+.++.......                   .|..++++
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~ei   93 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEI   93 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEE
Confidence            366789999999999999987654 4567899999999999999998764210                   01112222


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      ..+....                      .+.++.+.+...    .+++-++|+|+++...  ..+.+...+....    
T Consensus        94 daas~~g----------------------vd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp----  147 (486)
T PRK14953         94 DAASNRG----------------------IDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPP----  147 (486)
T ss_pred             eCccCCC----------------------HHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCC----
Confidence            2211111                      223333433332    2466799999998652  3334332222211    


Q ss_pred             ccccCCcEEEEec-cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          291 KQDLRRRTIILTS-RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       291 ~~~~~~s~ilvTt-R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                          ....+|++| +...+..........+.+.+++.++....+.+.+..... .-..+.+..|++.++|.+..+....
T Consensus       148 ----~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi-~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        148 ----PRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI-EYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             ----CCeEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence                344455544 433332222234568999999999999888887652221 2234667788999999776554443

>TIGR00767 rho transcription termination factor Rho

Probab=97.90  E-value=2.7e-05  Score=86.16  Aligned_cols=94  Identities=18%  Similarity=0.208  Sum_probs=65.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC--cCHHHHHHHHHHHhCCCCCCCCCh-----HHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN--PDVQKIQDKLASDLDLNFDLNDSK-----PHRAK  250 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~--~~~~~l~~~i~~~l~~~~~~~~~~-----~~~~~  250 (1209)
                      .....++|+|++|+|||||++.+++....+ +|+...|+.+.+.  .++.++++.+...+-...-+.+..     ...+.
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            345689999999999999999999988764 8998899999866  789999999854332221111110     11111


Q ss_pred             HHHHHH-hcCCeEEEEEeCCCcc
Q 038494          251 QLCQRL-TKEKRVLIILDNIWKK  272 (1209)
Q Consensus       251 ~l~~~l-~~~k~~LlvlDdv~~~  272 (1209)
                      ...+++ .++++.+|++|++...
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhHH
Confidence            122222 3589999999999765

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

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.90  E-value=9.8e-05  Score=78.72  Aligned_cols=175  Identities=11%  Similarity=0.125  Sum_probs=99.3

Q ss_pred             ccchh-hHH-HHHHHHHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          158 FEAFD-SRM-KLFQDVVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       158 ~~~~~-gR~-~~~~~l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      .++|+ |+. ..+..+.++.. ....+.+.|+|..|+|||+||+.+++.....+  ..+.+++.....      ..    
T Consensus        17 ~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~--~~~~~i~~~~~~------~~----   84 (227)
T PRK08903         17 FDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGG--RNARYLDAASPL------LA----   84 (227)
T ss_pred             hcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEehHHhH------HH----
Confidence            44555 433 33344444443 23446789999999999999999998764321  234555543311      00    


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCcc--ccCCCCCCCCccccccccCCc-EEEEeccchhhhcc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE--EIGIPFGDVDEKDRKQDLRRR-TIILTSRSKHLLTN  311 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~--~l~~~~~~~~~~~~~~~~~~s-~ilvTtR~~~v~~~  311 (1209)
                      +                  ...  ...-+||+||++....+.  .+...+....       ..+. .+|+|++.......
T Consensus        85 ~------------------~~~--~~~~~liiDdi~~l~~~~~~~L~~~~~~~~-------~~~~~~vl~~~~~~~~~~~  137 (227)
T PRK08903         85 F------------------DFD--PEAELYAVDDVERLDDAQQIALFNLFNRVR-------AHGQGALLVAGPAAPLALP  137 (227)
T ss_pred             H------------------hhc--ccCCEEEEeChhhcCchHHHHHHHHHHHHH-------HcCCcEEEEeCCCCHHhCC
Confidence            0                  011  133478899997653221  1211111100       0333 46667665332110


Q ss_pred             -------cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHh
Q 038494          312 -------DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK  372 (1209)
Q Consensus       312 -------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~  372 (1209)
                             .......++++++++++-..++.+.+.... ..-.++..+.+++...|.+..+..+...+.
T Consensus       138 l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~-v~l~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        138 LREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERG-LQLADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             CCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence                   112236899999999887777776543221 222356788899999999988877766543

>PF14516 AAA_35: AAA-like domain

Probab=97.89  E-value=0.00068  Score=76.20  Aligned_cols=211  Identities=14%  Similarity=0.195  Sum_probs=122.1

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-----cCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-----PDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-----~~~~~l~~~  230 (1209)
                      .+...+++|...-+++.+.+.+. ...+.|.|+-.+|||+|..++.+..+.. .+ .++++++...     .+...+++.
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~f~~~   84 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQFLRW   84 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHHHHHH
Confidence            34567889986777888877654 3589999999999999999999888754 23 4457777542     245555555


Q ss_pred             HH----HHhCCCCCCC-------CChHHHHHHHHHHHh--cCCeEEEEEeCCCcccCc----cccCCCCCCCCccccccc
Q 038494          231 LA----SDLDLNFDLN-------DSKPHRAKQLCQRLT--KEKRVLIILDNIWKKLGL----EEIGIPFGDVDEKDRKQD  293 (1209)
Q Consensus       231 i~----~~l~~~~~~~-------~~~~~~~~~l~~~l~--~~k~~LlvlDdv~~~~~~----~~l~~~~~~~~~~~~~~~  293 (1209)
                      ++    ++++....-.       .........+.+.+.  .+++.+|++|+|+..-..    +++...+..-...+....
T Consensus        85 ~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~  164 (331)
T PF14516_consen   85 FCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNP  164 (331)
T ss_pred             HHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCc
Confidence            54    4444432100       011122222333332  258999999999866221    111111100000000000


Q ss_pred             c-CCcE-EEEeccchhhhc----ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          294 L-RRRT-IILTSRSKHLLT----NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       294 ~-~~s~-ilvTtR~~~v~~----~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      . ..-+ |++.+.......    ........++|++++.+|...|..++-..     --....++|...+||+|.-+..+
T Consensus       165 ~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~-----~~~~~~~~l~~~tgGhP~Lv~~~  239 (331)
T PF14516_consen  165 IWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE-----FSQEQLEQLMDWTGGHPYLVQKA  239 (331)
T ss_pred             ccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc-----CCHHHHHHHHHHHCCCHHHHHHH
Confidence            0 1111 222221111110    11223457899999999999999876432     11233889999999999999999


Q ss_pred             HHHHhcC
Q 038494          368 ANALKNK  374 (1209)
Q Consensus       368 ~~~l~~~  374 (1209)
                      +..+...
T Consensus       240 ~~~l~~~  246 (331)
T PF14516_consen  240 CYLLVEE  246 (331)
T ss_pred             HHHHHHc
Confidence            9999754

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.86  E-value=0.00032  Score=77.60  Aligned_cols=199  Identities=13%  Similarity=0.151  Sum_probs=116.9

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc-------------cCCEEEEEEcCCCcC
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK-------------VFDKVVMAEVTENPD  223 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~-------------~f~~~~wv~~s~~~~  223 (1209)
                      ...++|.+..++.+.+.+..+.. ....++|+.|+||+++|..+++..-...             .+....|+.-....+
T Consensus         3 f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          3 FANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccc
Confidence            45688999999999999987764 7889999999999999999998764321             112234443211000


Q ss_pred             HHHHHHHHHHHhCCCCC-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCC
Q 038494          224 VQKIQDKLASDLDLNFD-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRR  296 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~  296 (1209)
                      -..+-..-++..+.... ...-..+.++.+.+.+.    .+.+-++|+|+++...  ....+...+-...        ..
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp--------~~  154 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG--------NG  154 (314)
T ss_pred             ccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC--------CC
Confidence            00000111111111000 01112456667776665    2466799999998663  2333322221111        22


Q ss_pred             cEEEEeccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          297 RTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       297 s~ilvTtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                      .-|++|++...+..+.......+.+.++++++..+.+.+......    .......++..++|.|..+..+.
T Consensus       155 ~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~----~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        155 TLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI----LNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             eEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc----chhHHHHHHHHcCCCHHHHHHHH
Confidence            334445544444444446678999999999999999988753111    11123588999999997665443

>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=97.86  E-value=2.1e-05  Score=57.94  Aligned_cols=42  Identities=31%  Similarity=0.472  Sum_probs=29.0

Q ss_pred             CCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccc
Q 038494          567 EDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAI  608 (1209)
Q Consensus       567 ~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i  608 (1209)
                      ++|++|++++|.|+++|..+++|++|++|++++|.+++++.+
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~l   42 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDISPL   42 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCcCC
Confidence            467778888887777777777777777777777776655433

...

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.85  E-value=0.00018  Score=90.47  Aligned_cols=159  Identities=13%  Similarity=0.178  Sum_probs=95.2

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----CE-EEEEEcCCCcCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----DK-VVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~-~~wv~~s~~~~~~~l~~~  230 (1209)
                      .....++||+.++.++++.|......-+.++|.+|+||||+|+.+++........    +. ++.+.++.-..       
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a-------  256 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA-------  256 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc-------
Confidence            3356789999999999999987766777899999999999999999987532211    22 23333322000       


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCcccC------ccc---cCCCCCCCCccccccccCCcEEE
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKLG------LEE---IGIPFGDVDEKDRKQDLRRRTII  300 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~------~~~---l~~~~~~~~~~~~~~~~~~s~il  300 (1209)
                            .. ....+-++.+..+.+... .+++.+|++|++.....      -.+   +..+....         ..-++|
T Consensus       257 ------g~-~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~---------G~l~~I  320 (852)
T TIGR03345       257 ------GA-SVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR---------GELRTI  320 (852)
T ss_pred             ------cc-ccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC---------CCeEEE
Confidence                  00 000011344455555553 24689999999876521      111   11111111         234566


Q ss_pred             Eeccchhhh------cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          301 LTSRSKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       301 vTtR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      -||...+.-      .........+.+++++.+++.+++....
T Consensus       321 gaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       321 AATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             EecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHH
Confidence            666543210      0011344689999999999999975544

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>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=97.84  E-value=0.00011  Score=77.17  Aligned_cols=163  Identities=18%  Similarity=0.179  Sum_probs=94.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ...+.|+|..|+|||.|.+++++.......-..+++++.      .++...+...+..         .....+.+.+.  
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~------~~f~~~~~~~~~~---------~~~~~~~~~~~--   96 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA------EEFIREFADALRD---------GEIEEFKDRLR--   96 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH------HHHHHHHHHHHHT---------TSHHHHHHHHC--
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH------HHHHHHHHHHHHc---------ccchhhhhhhh--
Confidence            457899999999999999999998865322235667754      4455555554432         12234555564  


Q ss_pred             CeEEEEEeCCCcccC---ccc-cCCCCCCCCccccccccCCcEEEEeccchhhhccc--------CCcceEEEcCCCCHH
Q 038494          260 KRVLIILDNIWKKLG---LEE-IGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTND--------MNSQKIFLIEVLSKE  327 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~---~~~-l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~--------~~~~~~~~l~~L~~~  327 (1209)
                      .-=+|++||++....   |+. +...+..       ....|.++|+|++.....-..        +....++++++.+++
T Consensus        97 ~~DlL~iDDi~~l~~~~~~q~~lf~l~n~-------~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~  169 (219)
T PF00308_consen   97 SADLLIIDDIQFLAGKQRTQEELFHLFNR-------LIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDE  169 (219)
T ss_dssp             TSSEEEEETGGGGTTHHHHHHHHHHHHHH-------HHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HH
T ss_pred             cCCEEEEecchhhcCchHHHHHHHHHHHH-------HHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHH
Confidence            346899999987632   221 1111110       011577899999765321111        234468999999999


Q ss_pred             HHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          328 EALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       328 e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      +-.+++.+.+....-. --++++.-|++.+.+..-.+.-+
T Consensus       170 ~r~~il~~~a~~~~~~-l~~~v~~~l~~~~~~~~r~L~~~  208 (219)
T PF00308_consen  170 DRRRILQKKAKERGIE-LPEEVIEYLARRFRRDVRELEGA  208 (219)
T ss_dssp             HHHHHHHHHHHHTT---S-HHHHHHHHHHTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CcHHHHHHHHHhhcCCHHHHHHH
Confidence            9999999887522211 23566777777776655444433

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.81  E-value=0.00044  Score=80.56  Aligned_cols=163  Identities=15%  Similarity=0.210  Sum_probs=92.8

Q ss_pred             ccccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhccc---CCEEEEEEcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV---FDKVVMAEVT  219 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~---f~~~~wv~~s  219 (1209)
                      ....++.|.+..++++.+.+.-             ...+-+.++|++|+|||++|+.+++.......   +....|+.+.
T Consensus       179 v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~  258 (512)
T TIGR03689       179 VTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIK  258 (512)
T ss_pred             CCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEecc
Confidence            3456777899999998887641             12356889999999999999999998753211   1234455544


Q ss_pred             CCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHH----hcCCeEEEEEeCCCcccCc--------------cccCCC
Q 038494          220 ENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRL----TKEKRVLIILDNIWKKLGL--------------EEIGIP  281 (1209)
Q Consensus       220 ~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l----~~~k~~LlvlDdv~~~~~~--------------~~l~~~  281 (1209)
                      ...    +....   .       ......++.+.+..    ..+++++|++|+++....-              ..+...
T Consensus       259 ~~e----Ll~ky---v-------Gete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       259 GPE----LLNKY---V-------GETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             chh----hcccc---c-------chHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            321    11000   0       00122223333322    2357899999999864210              011111


Q ss_pred             CCCCCccccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          282 FGDVDEKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       282 ~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      +...      ....+..||.||.........+    .-...++++..+.++..++|..+..
T Consensus       325 LDgl------~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       325 LDGV------ESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             hccc------ccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            1000      0113444566665544332222    2245689999999999999999875

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.81  E-value=0.00029  Score=85.48  Aligned_cols=198  Identities=13%  Similarity=0.146  Sum_probs=115.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.|..++..+.. ..+.++|..|+||||+|+.+++.........      -....+.....+.+....
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~~~~   87 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIAEGS   87 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHhcCC
Confidence            366899999999999998886554 4568999999999999999998875321110      001111122233333222


Q ss_pred             CCCC---CC-CCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          236 DLNF---DL-NDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       236 ~~~~---~~-~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      ..+.   +. .....+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+....        ..+.+|++|..
T Consensus        88 ~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp--------~~tv~Il~t~~  159 (585)
T PRK14950         88 AVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPP--------PHAIFILATTE  159 (585)
T ss_pred             CCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCC--------CCeEEEEEeCC
Confidence            1110   00 0111333444444333    1456799999997652  3444433222211        35556665543


Q ss_pred             -hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          306 -KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       306 -~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                       ..+..........+++.+++.++....+.+.+...... -..+.+..|++.++|.+..+.....
T Consensus       160 ~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        160 VHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             hhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence             33322222345678899999999998888876532211 2246788999999998865554443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.80  E-value=0.00016  Score=81.58  Aligned_cols=149  Identities=13%  Similarity=0.180  Sum_probs=86.3

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      |....+++|.+...+.+.+++..+.. .++.++|++|+|||++|+.+++....     .+..++.+. .....+ +..+.
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~-----~~~~i~~~~-~~~~~i-~~~l~   89 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVNGSD-CRIDFV-RNRLT   89 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCc-----cceEeccCc-ccHHHH-HHHHH
Confidence            34467889999999999999986654 46666999999999999999887532     123444443 222111 11111


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCccc--C-ccccCCCCCCCCccccccccCCcEEEEeccchhhh
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKL--G-LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL  309 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~--~-~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~  309 (1209)
                      .                 ...... .+.+-+||+||++...  . .+.+...+....        .++++|+||......
T Consensus        90 ~-----------------~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~--------~~~~~Ilt~n~~~~l  144 (316)
T PHA02544         90 R-----------------FASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYS--------KNCSFIITANNKNGI  144 (316)
T ss_pred             H-----------------HHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcC--------CCceEEEEcCChhhc
Confidence            1                 111110 1245689999997651  1 112211111111        567888888654321


Q ss_pred             -cccCCcceEEEcCCCCHHHHHHHHHH
Q 038494          310 -TNDMNSQKIFLIEVLSKEEALQFFEK  335 (1209)
Q Consensus       310 -~~~~~~~~~~~l~~L~~~e~~~lf~~  335 (1209)
                       .........+.++..+.++..+++..
T Consensus       145 ~~~l~sR~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        145 IEPLRSRCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             hHHHHhhceEEEeCCCCHHHHHHHHHH
Confidence             11123345677777888887766554

>PRK05642 DNA replication initiation factor; Validated

Probab=97.80  E-value=0.00028  Score=75.05  Aligned_cols=153  Identities=18%  Similarity=0.204  Sum_probs=92.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|..|+|||.|++.+++....+  -..++|++..+      +...                  ...+.+.+.+ -
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~~------~~~~------------------~~~~~~~~~~-~   98 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPLAE------LLDR------------------GPELLDNLEQ-Y   98 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeHHH------HHhh------------------hHHHHHhhhh-C
Confidence            578999999999999999999876543  24567777532      1110                  1123344432 2


Q ss_pred             eEEEEEeCCCcc---cCccc-cCCCCCCCCccccccccCCcEEEEeccchhhhccc--------CCcceEEEcCCCCHHH
Q 038494          261 RVLIILDNIWKK---LGLEE-IGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTND--------MNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       261 ~~LlvlDdv~~~---~~~~~-l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~--------~~~~~~~~l~~L~~~e  328 (1209)
                       =+||+||+...   ..|+. +...+....       ..|.++|+|++.....-..        .....++++++++.++
T Consensus        99 -d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~-------~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~  170 (234)
T PRK05642         99 -ELVCLDDLDVIAGKADWEEALFHLFNRLR-------DSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDED  170 (234)
T ss_pred             -CEEEEechhhhcCChHHHHHHHHHHHHHH-------hcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHH
Confidence             36889999754   23432 222221111       1467799988764321111        1233678999999999


Q ss_pred             HHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          329 ALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       329 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      -..+++.++.... -.--+++..-|++++.|-.-.+..+-.
T Consensus       171 ~~~il~~ka~~~~-~~l~~ev~~~L~~~~~~d~r~l~~~l~  210 (234)
T PRK05642        171 KLRALQLRASRRG-LHLTDEVGHFILTRGTRSMSALFDLLE  210 (234)
T ss_pred             HHHHHHHHHHHcC-CCCCHHHHHHHHHhcCCCHHHHHHHHH
Confidence            9999986654321 112256777888888877655544433

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.80  E-value=0.00043  Score=82.63  Aligned_cols=196  Identities=14%  Similarity=0.175  Sum_probs=112.8

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ....+++|-+..+..|..++.++..+ .+.++|+.|+||||+|+.+++..-.......   ..+....+-    +.+...
T Consensus        13 ~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~C----~~i~~~   85 (563)
T PRK06647         13 RDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSSC----KSIDND   85 (563)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchHH----HHHHcC
Confidence            34668899999999999999876554 5789999999999999999988753211100   001100000    111111


Q ss_pred             hCCC---CC-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          235 LDLN---FD-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       235 l~~~---~~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      -..+   .+ ......+.++.+.+.+.    .+++-++|+|+++...  +++.+...+....        ....+|++|.
T Consensus        86 ~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp--------~~~vfI~~tt  157 (563)
T PRK06647         86 NSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPP--------PYIVFIFATT  157 (563)
T ss_pred             CCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCC--------CCEEEEEecC
Confidence            0000   00 00011233333433222    2456689999998763  3445544433222        4555665554


Q ss_pred             c-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          305 S-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       305 ~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      . ..+..........+++.+++.++....+.+.+.... ..-..+.+..|++.++|.+-.+...
T Consensus       158 e~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~eg-i~id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        158 EVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQ-IKYEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             ChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3 333222234456789999999999888888764222 2223567778999999977544443

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.79  E-value=0.00025  Score=76.17  Aligned_cols=170  Identities=17%  Similarity=0.168  Sum_probs=106.2

Q ss_pred             cchhhHHHHHHHHHHHHhCCCc---eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          159 EAFDSRMKLFQDVVEALRNDKL---NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~---~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ..|-+|+..+..+...+.+...   ..|.|+|.+|.|||.+.+++.+.....     -+|+++-+.++.+.++..|+...
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~-----~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE-----NVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc-----ceeeehHHhccHHHHHHHHHHHh
Confidence            3577999999999998875443   345899999999999999999888432     47999999999999999999998


Q ss_pred             CCCCCCCCCh---HHHHHHHHHHHh-------cCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          236 DLNFDLNDSK---PHRAKQLCQRLT-------KEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       236 ~~~~~~~~~~---~~~~~~l~~~l~-------~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      +....+....   .+........+.       .++.++||||+++...+.+....+.-  -....+...+. -+|+++-.
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l--~~L~el~~~~~-i~iils~~  157 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCL--FRLYELLNEPT-IVIILSAP  157 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHH--HHHHHHhCCCc-eEEEEecc
Confidence            6222221111   122222222222       24689999999988755443211100  00000001132 33444332


Q ss_pred             --hhhhc--ccCCcceEEEcCCCCHHHHHHHHHHH
Q 038494          306 --KHLLT--NDMNSQKIFLIEVLSKEEALQFFEKI  336 (1209)
Q Consensus       306 --~~v~~--~~~~~~~~~~l~~L~~~e~~~lf~~~  336 (1209)
                        +....  .+.....++..+.-+.+|...++.+.
T Consensus       158 ~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  158 SCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             ccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence              22221  12234457888999999999998664

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

Probab=97.78  E-value=3e-07  Score=104.74  Aligned_cols=175  Identities=23%  Similarity=0.208  Sum_probs=101.3

Q ss_pred             cCCeEEEEccCCCCccCCCcCC-CCCccEEEeccCCC--------cccccChhhhcCCCCCcEEEecCcccccccccccC
Q 038494          518 QKGAIAISIPYGDIQELPERLE-CPQLKLLLLLANGD--------SYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH  588 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~-~~~L~~L~l~~~~~--------~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~  588 (1209)
                      -+.+|++-+.++++..+..... -.+|..|.....-.        .+.++.++.  ....|.+.++++|.+..+-.++.-
T Consensus       108 F~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~--~Wn~L~~a~fsyN~L~~mD~SLql  185 (1096)
T KOG1859|consen  108 FRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSP--VWNKLATASFSYNRLVLMDESLQL  185 (1096)
T ss_pred             ccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccch--hhhhHhhhhcchhhHHhHHHHHHH
Confidence            3578888888877665433221 23444444333210        111111111  134566777777777766667777


Q ss_pred             CCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          589 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       589 l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      ++.|+.|+|++|+++....+..|++|++||+++|.+..+|.--..-.+|+.|.+++ +.++.+-  ++.+|.+|+.|+++
T Consensus       186 l~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrn-N~l~tL~--gie~LksL~~LDls  262 (1096)
T KOG1859|consen  186 LPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRN-NALTTLR--GIENLKSLYGLDLS  262 (1096)
T ss_pred             HHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhhhheeeeecc-cHHHhhh--hHHhhhhhhccchh
Confidence            77778888888777777777777778888888777777765322223477777777 5565552  26777777777776


Q ss_pred             CCCCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          669 DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       669 ~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      .|.+.       .-..+.-|..|..|+.|.+.+|.+
T Consensus       263 yNll~-------~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  263 YNLLS-------EHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             Hhhhh-------cchhhhHHHHHHHHHHHhhcCCcc
Confidence            65421       111133344444555666655544

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.78  E-value=0.00018  Score=89.94  Aligned_cols=157  Identities=16%  Similarity=0.220  Sum_probs=94.7

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhccc---C-CEEEE-EEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV---F-DKVVM-AEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~---f-~~~~w-v~~s~~~~~~~l~~~i  231 (1209)
                      ....++||++++.++++.|......-+.++|.+|+|||++|+.+++.......   + +..+| +++      ..+    
T Consensus       180 ~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~------~~l----  249 (731)
T TIGR02639       180 KIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDM------GSL----  249 (731)
T ss_pred             CCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecH------HHH----
Confidence            34578999999999999988766667789999999999999999998754221   1 23333 221      111    


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc----------cc-cCCCCCCCCccccccccCCcEEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL----------EE-IGIPFGDVDEKDRKQDLRRRTII  300 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~----------~~-l~~~~~~~~~~~~~~~~~~s~il  300 (1209)
                      .....    ...+.++.+..+.+++...++.+|++|+++....-          .. +...+.          ...-++|
T Consensus       250 ~a~~~----~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~----------~g~i~~I  315 (731)
T TIGR02639       250 LAGTK----YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS----------SGKLRCI  315 (731)
T ss_pred             hhhcc----ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh----------CCCeEEE
Confidence            11000    00111455666776665456799999999854210          01 111111          0223455


Q ss_pred             Eeccchhh----h--cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          301 LTSRSKHL----L--TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       301 vTtR~~~v----~--~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      -+|...+.    .  .........+.+++++.++..+++....
T Consensus       316 gaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       316 GSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             EecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            55543221    0  0011234678999999999999998654

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.77  E-value=9e-05  Score=83.64  Aligned_cols=109  Identities=18%  Similarity=0.267  Sum_probs=73.8

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN  238 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~  238 (1209)
                      ...++.+..++.+...+...  +.|.++|++|+|||++|+.+++.......|+.+.||.++...+..+++..+.-. +..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~vg  251 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GVG  251 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CCC
Confidence            34567788889999888653  478889999999999999999988766678899999999988877765433110 100


Q ss_pred             CCCCCChHHHHHHHHHHHh--cCCeEEEEEeCCCccc
Q 038494          239 FDLNDSKPHRAKQLCQRLT--KEKRVLIILDNIWKKL  273 (1209)
Q Consensus       239 ~~~~~~~~~~~~~l~~~l~--~~k~~LlvlDdv~~~~  273 (1209)
                      ....   ......+.....  .++++++|+|++....
T Consensus       252 y~~~---~G~f~~~~~~A~~~p~~~~vliIDEINRan  285 (459)
T PRK11331        252 FRRK---DGIFYNFCQQAKEQPEKKYVFIIDEINRAN  285 (459)
T ss_pred             eEec---CchHHHHHHHHHhcccCCcEEEEehhhccC
Confidence            0000   111111222221  2468999999998763

>PLN03150 hypothetical protein; Provisional

Probab=97.77  E-value=5e-05  Score=93.05  Aligned_cols=102  Identities=20%  Similarity=0.358  Sum_probs=75.2

Q ss_pred             CCcEEEecCcccc-cccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCC-ccchhccCCCCCCEEecc
Q 038494          568 DLKVLSLSGIHFS-SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLS  643 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~~L~l~  643 (1209)
                      .++.|+|+++.+. .+|..++.+++|++|+|++|.+...  ..++.+++|++|++++|.+. .+|..++++++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            4678888888886 6788888888888888888887643  57888888888888888887 678888888888888888


Q ss_pred             CCCCCcccCchhhcC-CCCCcEEECCCC
Q 038494          644 NCSSLVVIAPNVISK-FSRLEELYMGDS  670 (1209)
Q Consensus       644 ~~~~l~~~~~~~l~~-L~~L~~L~l~~~  670 (1209)
                      +|.....+|.. ++. ..++..+++.+|
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFTDN  525 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEecCC
Confidence            84433344433 543 345556665543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.75  E-value=0.0002  Score=83.61  Aligned_cols=168  Identities=15%  Similarity=0.115  Sum_probs=105.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|..|+|||+|++.+++.......-..+++++.      .++...+...++..       ........+.+.  .
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~------~~f~~~~~~~l~~~-------~~~~~~~~~~~~--~  206 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG------DEFARKAVDILQKT-------HKEIEQFKNEIC--Q  206 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHHHh-------hhHHHHHHHHhc--c
Confidence            56899999999999999999997654322234555544      44666666655421       123334445453  3


Q ss_pred             eEEEEEeCCCccc---Cc-cccCCCCCCCCccccccccCCcEEEEeccchhhhc--------ccCCcceEEEcCCCCHHH
Q 038494          261 RVLIILDNIWKKL---GL-EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT--------NDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       261 ~~LlvlDdv~~~~---~~-~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~--------~~~~~~~~~~l~~L~~~e  328 (1209)
                      .-+||+||+....   .+ +.+...+....       ..|..||+|+.......        ......-++.+++++.++
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~-------~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~  279 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFI-------ENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKT  279 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHH-------HcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHH
Confidence            4589999997652   11 22222111110       14557888876542110        012334678899999999


Q ss_pred             HHHHHHHHhCCCCC-CCcchHHHHHHHHHhCCChhHHHHHHHH
Q 038494          329 ALQFFEKIVGNSAK-ASAFQPLADEIVGKCGGLPVALSTVANA  370 (1209)
Q Consensus       329 ~~~lf~~~~~~~~~-~~~~~~~~~~i~~~~~glPLai~~~~~~  370 (1209)
                      -.+++.+++..... ..-.++++.-|++.++|.|-.+.-+...
T Consensus       280 r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~  322 (450)
T PRK14087        280 ATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSR  322 (450)
T ss_pred             HHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHH
Confidence            99999998863221 1334678889999999999877766543

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

Probab=97.74  E-value=3.6e-06  Score=86.30  Aligned_cols=41  Identities=17%  Similarity=0.233  Sum_probs=29.3

Q ss_pred             cCCccEEEEecCCCccccccHHHHhhcccccEEEEeccccc
Q 038494          845 FSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKL  885 (1209)
Q Consensus       845 l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l  885 (1209)
                      =.+|+.|+|+.|..++.....-.+++++.|.+|+|+.|...
T Consensus       233 N~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~  273 (419)
T KOG2120|consen  233 NSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLF  273 (419)
T ss_pred             cccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhcc
Confidence            35677778888877776655556677888888888887543

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.74  E-value=0.00032  Score=80.60  Aligned_cols=179  Identities=16%  Similarity=0.158  Sum_probs=100.1

Q ss_pred             ccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ....++.|.+..++++.+++.    .         ...+.+.++|++|+|||++|+.+++.....  |   +.+..+.  
T Consensus       180 ~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~--f---i~V~~se--  252 (438)
T PTZ00361        180 ESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSAT--F---LRVVGSE--  252 (438)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCC--E---EEEecch--
Confidence            335667899999988888764    1         123568899999999999999999976532  3   1122111  


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcc-------ccc----
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEK-------DRK----  291 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~-------~~~----  291 (1209)
                          +...   ..+       .....+..+......+.+.+|++|+++....-..  ... .++..       ..+    
T Consensus       253 ----L~~k---~~G-------e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~--~~~-sgg~~e~qr~ll~LL~~Ld  315 (438)
T PTZ00361        253 ----LIQK---YLG-------DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRY--DAT-SGGEKEIQRTMLELLNQLD  315 (438)
T ss_pred             ----hhhh---hcc-------hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCC--CCC-CcccHHHHHHHHHHHHHHh
Confidence                1110   011       1123344455444456789999999875411000  000 00000       000    


Q ss_pred             --cccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          292 --QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       292 --~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                        ....+.+||+||...+......    .....++++..+.++..++|..+.....-..+  .....++..+.|.
T Consensus       316 g~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~d--vdl~~la~~t~g~  388 (438)
T PTZ00361        316 GFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAED--VDLEEFIMAKDEL  388 (438)
T ss_pred             hhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcC--cCHHHHHHhcCCC
Confidence              0114567888887655433222    23467899999999999999987753221111  1123555566554

>PLN03150 hypothetical protein; Provisional

Probab=97.73  E-value=6.9e-05  Score=91.86  Aligned_cols=104  Identities=21%  Similarity=0.323  Sum_probs=85.4

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-cccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEE
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  618 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~  618 (1209)
                      .++.|++.++. ....+|. .+..+++|+.|+|++|.+. .+|..++.+.+|++|+|++|.+...  ..++++++|++|+
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 FIDGLGLDNQG-LRGFIPN-DISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILN  496 (623)
T ss_pred             EEEEEECCCCC-ccccCCH-HHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEE
Confidence            36778887774 2334554 4689999999999999997 7899999999999999999998754  7799999999999


Q ss_pred             ccCCCCC-ccchhccCC-CCCCEEeccCCCC
Q 038494          619 FRYSDIK-QLPLEIGQL-AQLQLLDLSNCSS  647 (1209)
Q Consensus       619 l~~~~~~-~lp~~i~~L-~~L~~L~l~~~~~  647 (1209)
                      +++|.+. .+|..++.+ .++..+++.++..
T Consensus       497 Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        497 LNGNSLSGRVPAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             CcCCcccccCChHHhhccccCceEEecCCcc
Confidence            9999887 889888764 5677888877543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.72  E-value=0.00021  Score=90.57  Aligned_cols=157  Identities=17%  Similarity=0.212  Sum_probs=94.4

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----CEEEEEEcCCCcCHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----DKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ...++||+++++++++.|......-+.++|.+|+|||++|+.+++........    +..+|. +    +...++     
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~-----  247 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL-----  247 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh-----
Confidence            45689999999999999986666677899999999999999999887532111    233442 1    111111     


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc---------cccCCCCCCCCccccccccCCcEEEEecc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL---------EEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~---------~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                        ...... .+-++.+..+.+++...++.+|++|++.....-         ..+..+..         ....-++|.+|.
T Consensus       248 --ag~~~~-ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l---------~rg~l~~IgaTt  315 (821)
T CHL00095        248 --AGTKYR-GEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPAL---------ARGELQCIGATT  315 (821)
T ss_pred             --ccCCCc-cHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHH---------hCCCcEEEEeCC
Confidence              111111 112455666777666557899999999754210         01111110         012345666665


Q ss_pred             chhhh------cccCCcceEEEcCCCCHHHHHHHHHHH
Q 038494          305 SKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKI  336 (1209)
Q Consensus       305 ~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~  336 (1209)
                      .....      .........+.+...+.++...++...
T Consensus       316 ~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        316 LDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            54321      111234467889999999988888654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.72  E-value=0.0006  Score=81.85  Aligned_cols=193  Identities=15%  Similarity=0.152  Sum_probs=111.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ....++|.+...+.+..++..+.. ..+.++|+.|+||||+|+.+++........+.       .+.+....-+.+....
T Consensus        14 ~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~-------~pC~~C~~C~~i~~g~   86 (559)
T PRK05563         14 TFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDG-------EPCNECEICKAITNGS   86 (559)
T ss_pred             cHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC-------CCCCccHHHHHHhcCC
Confidence            366899999999999999986554 45678999999999999999987643221110       0111111112221111


Q ss_pred             CCCC---C-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEE-ecc
Q 038494          236 DLNF---D-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIIL-TSR  304 (1209)
Q Consensus       236 ~~~~---~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilv-TtR  304 (1209)
                      ..+.   + ......+.++.+.....    .+++-++|+|+++..  ..+..+...+....        ....+|+ ||.
T Consensus        87 ~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp--------~~~ifIlatt~  158 (559)
T PRK05563         87 LMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPP--------AHVIFILATTE  158 (559)
T ss_pred             CCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCC--------CCeEEEEEeCC
Confidence            1100   0 00111344445544433    246678999999866  23444433332211        3444454 444


Q ss_pred             chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          305 SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       305 ~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      ...+..........+++.+++.++....+...+..... .-..+.++.|++.++|-+..+.
T Consensus       159 ~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi-~i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        159 PHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGI-EYEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             hhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHH
Confidence            43333322345578899999999999888887642221 1224667788899988765443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.71  E-value=4.6e-05  Score=84.91  Aligned_cols=119  Identities=24%  Similarity=0.327  Sum_probs=71.7

Q ss_pred             CCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCC
Q 038494          817 FPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKP  896 (1209)
Q Consensus       817 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~  896 (1209)
                      +++++.|++++| .++.++  .+     .++|+.|.+++|..++.+|..  +  .++|+.|.+++|..+..+        
T Consensus        51 ~~~l~~L~Is~c-~L~sLP--~L-----P~sLtsL~Lsnc~nLtsLP~~--L--P~nLe~L~Ls~Cs~L~sL--------  110 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLP--VL-----PNELTEITIENCNNLTTLPGS--I--PEGLEKLTVCHCPEISGL--------  110 (426)
T ss_pred             hcCCCEEEeCCC-CCcccC--CC-----CCCCcEEEccCCCCcccCCch--h--hhhhhheEccCccccccc--------
Confidence            578889999987 666653  11     246999999999988887751  1  368899999988665432        


Q ss_pred             CccccccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccC
Q 038494          897 TTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEF  976 (1209)
Q Consensus       897 ~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~  976 (1209)
                                           +++|+.|++.+. ....+.           .-.++|+.|.+.++..........  .-.
T Consensus       111 ---------------------P~sLe~L~L~~n-~~~~L~-----------~LPssLk~L~I~~~n~~~~~~lp~--~LP  155 (426)
T PRK15386        111 ---------------------PESVRSLEIKGS-ATDSIK-----------NVPNGLTSLSINSYNPENQARIDN--LIS  155 (426)
T ss_pred             ---------------------ccccceEEeCCC-CCcccc-----------cCcchHhheecccccccccccccc--ccC
Confidence                                 356777776532 211110           112467777764432221111111  012


Q ss_pred             CCcceEeeccCCCc
Q 038494          977 PSLERVSMIRCPNM  990 (1209)
Q Consensus       977 ~~L~~L~i~~C~~L  990 (1209)
                      ++|++|.|.+|..+
T Consensus       156 sSLk~L~Is~c~~i  169 (426)
T PRK15386        156 PSLKTLSLTGCSNI  169 (426)
T ss_pred             CcccEEEecCCCcc
Confidence            57888888888755

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

Probab=97.68  E-value=2.2e-06  Score=87.79  Aligned_cols=186  Identities=18%  Similarity=0.166  Sum_probs=90.3

Q ss_pred             CccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEee
Q 038494          847 NLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKV  926 (1209)
Q Consensus       847 ~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l  926 (1209)
                      +|+.|++++- .++.-.-...++++..|+.|.|.+.. +.+-+.                      ..+.-..+|+.|++
T Consensus       186 Rlq~lDLS~s-~it~stl~~iLs~C~kLk~lSlEg~~-LdD~I~----------------------~~iAkN~~L~~lnl  241 (419)
T KOG2120|consen  186 RLQHLDLSNS-VITVSTLHGILSQCSKLKNLSLEGLR-LDDPIV----------------------NTIAKNSNLVRLNL  241 (419)
T ss_pred             hhHHhhcchh-heeHHHHHHHHHHHHhhhhccccccc-cCcHHH----------------------HHHhccccceeecc
Confidence            4666666663 33332223445566666666666532 211111                      11122356677777


Q ss_pred             ccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCccc
Q 038494          927 SKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKV 1006 (1209)
Q Consensus       927 ~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~ 1006 (1209)
                      +.|..++......      ....|+.|..|.|+.|............+--++|..|.+++|.+--.  .           
T Consensus       242 sm~sG~t~n~~~l------l~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~--~-----------  302 (419)
T KOG2120|consen  242 SMCSGFTENALQL------LLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQ--K-----------  302 (419)
T ss_pred             ccccccchhHHHH------HHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhh--h-----------
Confidence            7776665432211      23456666666666666444332222223345566666666542110  0           


Q ss_pred             ccccccccccccccccccchhhhhhhh-hhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccc
Q 038494         1007 QVTEKEEGELHHWEGNNLNSIMQKYYK-EMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIP 1085 (1209)
Q Consensus      1007 ~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~ 1085 (1209)
                                             .... -...+|.|.+||+++|..++.--   ...+-.|+.|++|.++.|+.+.   |
T Consensus       303 -----------------------sh~~tL~~rcp~l~~LDLSD~v~l~~~~---~~~~~kf~~L~~lSlsRCY~i~---p  353 (419)
T KOG2120|consen  303 -----------------------SHLSTLVRRCPNLVHLDLSDSVMLKNDC---FQEFFKFNYLQHLSLSRCYDII---P  353 (419)
T ss_pred             -----------------------hHHHHHHHhCCceeeeccccccccCchH---HHHHHhcchheeeehhhhcCCC---h
Confidence                                   0000 01245666667776666665311   1123455667777777776552   3


Q ss_pred             hh--hHhhhccCcEEEEccCC
Q 038494         1086 AN--LLRCLNNLRRLEVRNCD 1104 (1209)
Q Consensus      1086 ~~--~~~~l~~L~~L~i~~c~ 1104 (1209)
                      ..  .+...++|.+|++-+|-
T Consensus       354 ~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  354 ETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             HHeeeeccCcceEEEEecccc
Confidence            22  12344566666666654

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=0.002  Score=68.92  Aligned_cols=199  Identities=16%  Similarity=0.203  Sum_probs=121.6

Q ss_pred             ccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      +.++=|-++.+++|.+.+.    +         +..+-|.+||++|.|||-||++|++.-...  |     +.+...   
T Consensus       150 Y~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At--F-----IrvvgS---  219 (406)
T COG1222         150 YEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT--F-----IRVVGS---  219 (406)
T ss_pred             hhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce--E-----EEeccH---
Confidence            4556688999999998876    1         234568899999999999999999987754  4     333322   


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC--c--------------cccCCCCCCCCcc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG--L--------------EEIGIPFGDVDEK  288 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~--~--------------~~l~~~~~~~~~~  288 (1209)
                       ++.+   +.+|-       ....++.+.+.-+...+.+|.+|.++....  .              -.+...+...   
T Consensus       220 -ElVq---KYiGE-------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGF---  285 (406)
T COG1222         220 -ELVQ---KYIGE-------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGF---  285 (406)
T ss_pred             -HHHH---HHhcc-------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCC---
Confidence             1111   11221       156677777777777899999999976511  0              0011111100   


Q ss_pred             ccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhC--CCCCCCcchHHHHHHHHHhCCCh-
Q 038494          289 DRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVG--NSAKASAFQPLADEIVGKCGGLP-  361 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~--~~~~~~~~~~~~~~i~~~~~glP-  361 (1209)
                         ....+-|||..|-..++..-+.    .-...++++.-+.+.-.++|+-|+.  ...+.-+++    .|++.+.|.- 
T Consensus       286 ---D~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e----~la~~~~g~sG  358 (406)
T COG1222         286 ---DPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLE----LLARLTEGFSG  358 (406)
T ss_pred             ---CCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHH----HHHHhcCCCch
Confidence               1125679999988776553222    2346788886666666788887775  223334444    5666666654 


Q ss_pred             ---hHHHHHHHHHh---cC---ChhHHHHHHHHHh
Q 038494          362 ---VALSTVANALK---NK---KLPVWKDALTQLR  387 (1209)
Q Consensus       362 ---Lai~~~~~~l~---~~---~~~~w~~~~~~l~  387 (1209)
                         -|+.+=|++++   .+   +.+++.++.++..
T Consensus       359 AdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~KV~  393 (406)
T COG1222         359 ADLKAICTEAGMFAIRERRDEVTMEDFLKAVEKVV  393 (406)
T ss_pred             HHHHHHHHHHhHHHHHhccCeecHHHHHHHHHHHH
Confidence               35566677765   12   4556666665543

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.63  E-value=0.00054  Score=82.72  Aligned_cols=195  Identities=13%  Similarity=0.187  Sum_probs=110.7

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ...+++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+++........+.       ...+....-+.|...-
T Consensus        14 ~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~-------~~c~~c~~c~~i~~g~   86 (576)
T PRK14965         14 TFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTA-------EPCNVCPPCVEITEGR   86 (576)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC-------CCCCccHHHHHHhcCC
Confidence            366899999999999999987665 45689999999999999999988643211100       0000011111111100


Q ss_pred             CCCC---C-CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEec-c
Q 038494          236 DLNF---D-LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTS-R  304 (1209)
Q Consensus       236 ~~~~---~-~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt-R  304 (1209)
                      ..+.   + ......+.++.+...+.    .+++-++|+|+++...  ..+.+...+-...        ....+|++| .
T Consensus        87 ~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp--------~~~~fIl~t~~  158 (576)
T PRK14965         87 SVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPP--------PHVKFIFATTE  158 (576)
T ss_pred             CCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCC--------CCeEEEEEeCC
Confidence            0000   0 00111334444444443    2355689999998663  3333332222211        355555544 4


Q ss_pred             chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh-hHHHHH
Q 038494          305 SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP-VALSTV  367 (1209)
Q Consensus       305 ~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-Lai~~~  367 (1209)
                      ...+..........+++.+++.++....+...+..... .-..+.+..|++.++|.. .|+..+
T Consensus       159 ~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi-~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        159 PHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI-SISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            44444333345678899999999998888776642221 123466778999998865 444444

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.63  E-value=0.001  Score=74.11  Aligned_cols=156  Identities=16%  Similarity=0.199  Sum_probs=94.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccC-------------------CEEEEEEcCCCcCHHHHHHHHHHHhCCCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF-------------------DKVVMAEVTENPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-------------------~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      ...+.++|+.|+|||++|+.+++..-.+...                   ....|+.-...                   
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-------------------   82 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-------------------   82 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-------------------
Confidence            3567899999999999999999887542211                   01122211000                   


Q ss_pred             CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhcccC
Q 038494          241 LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLTNDM  313 (1209)
Q Consensus       241 ~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~~~~  313 (1209)
                      ......+.++.+.+.+.    .+++-++|+|+++...  ....+...+-...        .++.+|+||.+.. +..+..
T Consensus        83 ~~~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp--------~~~~fiL~t~~~~~ll~TI~  154 (328)
T PRK05707         83 DKTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPS--------GDTVLLLISHQPSRLLPTIK  154 (328)
T ss_pred             CCCCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCC--------CCeEEEEEECChhhCcHHHH
Confidence            01112455555555554    2345566789998763  3444433332222        4566777776653 433334


Q ss_pred             CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          314 NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       314 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      .....+.+.+++.+++.+.+......     ...+.+..++..++|.|+....+
T Consensus       155 SRc~~~~~~~~~~~~~~~~L~~~~~~-----~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        155 SRCQQQACPLPSNEESLQWLQQALPE-----SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHhccc-----CChHHHHHHHHHcCCCHHHHHHH
Confidence            56678999999999999999876421     12345667889999999755444

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.62  E-value=0.0012  Score=75.55  Aligned_cols=177  Identities=14%  Similarity=0.165  Sum_probs=101.0

Q ss_pred             ccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ....++.|-+..++++.+.+.    .         ...+-|.++|++|+|||++|+.+++.....  |   +.+..    
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~--f---i~i~~----  212 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT--F---IRVVG----  212 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E---EEEeh----
Confidence            346678898888888887664    1         134678899999999999999999876532  2   22211    


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc----------------cccCCCCCCCC
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL----------------EEIGIPFGDVD  286 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~----------------~~l~~~~~~~~  286 (1209)
                        ..+...   ..+       .....++.+........+.+|++|+++....-                ..+...+..  
T Consensus       213 --s~l~~k---~~g-------e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~--  278 (398)
T PTZ00454        213 --SEFVQK---YLG-------EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDG--  278 (398)
T ss_pred             --HHHHHH---hcc-------hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhc--
Confidence              111111   111       11334445555555567899999998754100                000000000  


Q ss_pred             ccccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          287 EKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       287 ~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                          .....+..||+||...+......    .-...+.++..+.++..++|..+.......++  -...++++.+.|.-
T Consensus       279 ----~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~d--vd~~~la~~t~g~s  351 (398)
T PTZ00454        279 ----FDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEE--VDLEDFVSRPEKIS  351 (398)
T ss_pred             ----cCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcc--cCHHHHHHHcCCCC
Confidence                00114567888887654432211    23457889999999988888877653221111  11346666666653

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.62  E-value=0.02  Score=59.57  Aligned_cols=183  Identities=19%  Similarity=0.210  Sum_probs=100.0

Q ss_pred             cccccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      |....+|+|.++.++.+.=++.     +.....|.++|++|.||||||.-+++...++  +.    ++-+....      
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~k----~tsGp~le------   89 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--LK----ITSGPALE------   89 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--eE----eccccccc------
Confidence            3446789999888777765554     3446789999999999999999999998765  11    11111000      


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc---------CccccCC--CCCCCCccccc-cccCC-
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL---------GLEEIGI--PFGDVDEKDRK-QDLRR-  296 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~---------~~~~l~~--~~~~~~~~~~~-~~~~~-  296 (1209)
                                     ....+..+...+.  +.=++.+|.+....         ..+++..  ..+.+..+... -..+. 
T Consensus        90 ---------------K~gDlaaiLt~Le--~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppF  152 (332)
T COG2255          90 ---------------KPGDLAAILTNLE--EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPF  152 (332)
T ss_pred             ---------------ChhhHHHHHhcCC--cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCe
Confidence                           0112222333332  33455566655431         1122111  01111000000 00011 


Q ss_pred             cEEEEeccchhhhccc-CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          297 RTIILTSRSKHLLTND-MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       297 s~ilvTtR~~~v~~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      +-|=-|||.-.+..-. -.-..+.+++-.+.+|-.++..+.+.. -...-.++.+.+|+++..|-|--..-+
T Consensus       153 TLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~-l~i~i~~~~a~eIA~rSRGTPRIAnRL  223 (332)
T COG2255         153 TLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI-LGIEIDEEAALEIARRSRGTPRIANRL  223 (332)
T ss_pred             eEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH-hCCCCChHHHHHHHHhccCCcHHHHHH
Confidence            1133477764432210 012346778889999999999887741 112223567889999999999644433

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.55  E-value=0.0006  Score=74.19  Aligned_cols=47  Identities=17%  Similarity=0.168  Sum_probs=33.3

Q ss_pred             cchhhHHHHHHHHHH---HHh------------CCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          159 EAFDSRMKLFQDVVE---ALR------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~---~L~------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..++|.+..++.+.+   |..            .+....+.++|++|+||||+|+.+++...
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~   67 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFK   67 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            356777666655543   332            12345678999999999999999998764

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

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

Probab=97.54  E-value=1e-05  Score=98.07  Aligned_cols=122  Identities=20%  Similarity=0.235  Sum_probs=65.3

Q ss_pred             cCCccEEEEecCCCccccccHHHHhhcccccEEEEecc-cccccccccCCCCCCccccccccccCCCCCCCccCccccce
Q 038494          845 FSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASC-NKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVN  923 (1209)
Q Consensus       845 l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~  923 (1209)
                      +|.|+.|.+..|..+............+.|++|++++| .........                   .......+++|+.
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~-------------------~~~~~~~~~~L~~  247 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLL-------------------LLLLLSICRKLKS  247 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhH-------------------hhhhhhhcCCcCc
Confidence            56666666666665555332334555666666666653 111100000                   0001123355666


Q ss_pred             EeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCcc
Q 038494          924 LKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMK  991 (1209)
Q Consensus       924 L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~  991 (1209)
                      |+++.|..++.....      .....+|+|+.|.+.+|..+++.........+++|+.|+++.|..++
T Consensus       248 l~l~~~~~isd~~l~------~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~  309 (482)
T KOG1947|consen  248 LDLSGCGLVTDIGLS------ALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLT  309 (482)
T ss_pred             cchhhhhccCchhHH------HHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccch
Confidence            666666544322110      01123678888888878876665555555567888888888887764

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

Probab=97.50  E-value=2e-05  Score=95.54  Aligned_cols=121  Identities=20%  Similarity=0.175  Sum_probs=55.8

Q ss_pred             hcccceeeeccccccccccccccCCCCccCCcEEEEecc-cCceeeeccCCccccccCCcccEEecccccccchhccccc
Q 038494          761 LKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERC-SEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQL  839 (1209)
Q Consensus       761 ~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~-~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  839 (1209)
                      .+.++.+.+..+....... ........++|+.|++.+| ..... ...........+++|+.|++..|..+++.....+
T Consensus       187 ~~~L~~l~l~~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~~~~~-~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l  264 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDS-LDALALKCPNLEELDLSGCCLLITL-SPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSAL  264 (482)
T ss_pred             CchhhHhhhcccccCChhh-HHHHHhhCchhheecccCccccccc-chhHhhhhhhhcCCcCccchhhhhccCchhHHHH
Confidence            4555555555554443311 0011344666777766653 21110 0000011223345666666666554444322222


Q ss_pred             ccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccccc
Q 038494          840 REDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKL  885 (1209)
Q Consensus       840 ~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l  885 (1209)
                      .  ..+|+|+.|.+.+|..++........+.+++|++|+++.|..+
T Consensus       265 ~--~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  265 A--SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             H--hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            1  1255666666666655554444444455566666666655443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.50  E-value=0.001  Score=72.91  Aligned_cols=132  Identities=14%  Similarity=0.158  Sum_probs=70.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCe
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKR  261 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~  261 (1209)
                      -+.++|.+|+|||++|+.+++...........-|+.++.    .++...   ..+..       ......+.+..   ..
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l~~~---~~g~~-------~~~~~~~~~~a---~~  122 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDLVGQ---YIGHT-------APKTKEILKRA---MG  122 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHHhHh---hcccc-------hHHHHHHHHHc---cC
Confidence            578999999999999999887765432222112444432    122111   11111       12223333333   23


Q ss_pred             EEEEEeCCCccc------C-----ccccCCCCCCCCccccccccCCcEEEEeccchhhhcc-c------CCcceEEEcCC
Q 038494          262 VLIILDNIWKKL------G-----LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN-D------MNSQKIFLIEV  323 (1209)
Q Consensus       262 ~LlvlDdv~~~~------~-----~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~-~------~~~~~~~~l~~  323 (1209)
                      -+|++|++....      .     ++.+...+....        .+.+||+++.....-.. .      ......+++++
T Consensus       123 gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~--------~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~  194 (284)
T TIGR02880       123 GVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQR--------DDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPD  194 (284)
T ss_pred             cEEEEechhhhccCCCccchHHHHHHHHHHHHhcCC--------CCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCC
Confidence            688999997431      1     112222221111        35566666643221100 0      01235799999


Q ss_pred             CCHHHHHHHHHHHhC
Q 038494          324 LSKEEALQFFEKIVG  338 (1209)
Q Consensus       324 L~~~e~~~lf~~~~~  338 (1209)
                      ++.+|-.+++...+.
T Consensus       195 l~~edl~~I~~~~l~  209 (284)
T TIGR02880       195 YSEAELLVIAGLMLK  209 (284)
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999999988764

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.

>CHL00181 cbbX CbbX; Provisional

Probab=97.49  E-value=0.0013  Score=71.98  Aligned_cols=133  Identities=14%  Similarity=0.150  Sum_probs=70.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.++|.+|+||||+|+.+++.......-...-|+.++.    .++....   .+..       ......+.+..   .
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~l~~~~---~g~~-------~~~~~~~l~~a---~  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DDLVGQY---IGHT-------APKTKEVLKKA---M  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HHHHHHH---hccc-------hHHHHHHHHHc---c
Confidence            3578999999999999999998764322111112444442    1222211   1110       11222333322   2


Q ss_pred             eEEEEEeCCCccc------Cc-----cccCCCCCCCCccccccccCCcEEEEeccchhhhc-------ccCCcceEEEcC
Q 038494          261 RVLIILDNIWKKL------GL-----EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT-------NDMNSQKIFLIE  322 (1209)
Q Consensus       261 ~~LlvlDdv~~~~------~~-----~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~-------~~~~~~~~~~l~  322 (1209)
                      .-+|++|++....      .+     +.+........        .+.+||+++.......       ........+.++
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~--------~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~  194 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQR--------DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFP  194 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCC--------CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcC
Confidence            3589999997531      01     11111111111        3456666665432210       001234579999


Q ss_pred             CCCHHHHHHHHHHHhC
Q 038494          323 VLSKEEALQFFEKIVG  338 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~~  338 (1209)
                      +++.+|..+++...+.
T Consensus       195 ~~t~~el~~I~~~~l~  210 (287)
T CHL00181        195 DYTPEELLQIAKIMLE  210 (287)
T ss_pred             CcCHHHHHHHHHHHHH
Confidence            9999999999888774

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.48  E-value=0.00074  Score=78.81  Aligned_cols=160  Identities=21%  Similarity=0.227  Sum_probs=94.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|..|+|||+|++.+++....+..-..+++++..      ++...+...+...         ......+.+.  +
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~------~~~~~~~~~~~~~---------~~~~~~~~~~--~  199 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE------KFTNDFVNALRNN---------KMEEFKEKYR--S  199 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH------HHHHHHHHHHHcC---------CHHHHHHHHH--h
Confidence            568899999999999999999988654212356677543      3344444444321         1223344443  2


Q ss_pred             eEEEEEeCCCcccCc----cccCCCCCCCCccccccccCCcEEEEeccchhhh-c-------ccCCcceEEEcCCCCHHH
Q 038494          261 RVLIILDNIWKKLGL----EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-T-------NDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       261 ~~LlvlDdv~~~~~~----~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-~-------~~~~~~~~~~l~~L~~~e  328 (1209)
                      .-+||+||++.....    +.+...+...       ...+..+|+|+....-. .       ..+.....+.+++.+.++
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~-------~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~  272 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNAL-------HENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLET  272 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHH-------HHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHH
Confidence            348999999865221    1121111100       01355688887653211 0       012233578999999999


Q ss_pred             HHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          329 ALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       329 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      -..++.+.+.... ..-.+++...|++.+.|..-.+.
T Consensus       273 r~~il~~~~~~~~-~~l~~e~l~~ia~~~~~~~r~l~  308 (405)
T TIGR00362       273 RLAILQKKAEEEG-LELPDEVLEFIAKNIRSNVRELE  308 (405)
T ss_pred             HHHHHHHHHHHcC-CCCCHHHHHHHHHhcCCCHHHHH
Confidence            9999999886322 22235777888888888765443

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.48  E-value=0.004  Score=74.58  Aligned_cols=183  Identities=13%  Similarity=0.168  Sum_probs=100.0

Q ss_pred             ccccchhhHHHHHHHHHHHHh---C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALR---N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ....+++|-++.++++.+++.   .         ...+-+.++|++|+|||++|+.+++.....       ++.++.   
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~-------~~~i~~---  121 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-------FFSISG---  121 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC-------eeeccH---
Confidence            345678887776666555433   1         123458899999999999999999875432       222221   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCcc----------------ccCCCCCCCCc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE----------------EIGIPFGDVDE  287 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~----------------~l~~~~~~~~~  287 (1209)
                       .++....   .+.       ....++.+.+......+.+|++||++....-.                .+...+..   
T Consensus       122 -~~~~~~~---~g~-------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~---  187 (495)
T TIGR01241       122 -SDFVEMF---VGV-------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDG---  187 (495)
T ss_pred             -HHHHHHH---hcc-------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhcc---
Confidence             1111110   110       13344555555554577999999997642100                00000000   


Q ss_pred             cccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hh
Q 038494          288 KDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PV  362 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PL  362 (1209)
                         .....+-.||.||..........    .-...+.++..+.++-.++|..+.......+  ......+++.+.|. +-
T Consensus       188 ---~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~--~~~l~~la~~t~G~sga  262 (495)
T TIGR01241       188 ---FGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP--DVDLKAVARRTPGFSGA  262 (495)
T ss_pred             ---ccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc--chhHHHHHHhCCCCCHH
Confidence               00113445666665543221111    2346788999999999999988875332211  12244788888774 44


Q ss_pred             HHHHH
Q 038494          363 ALSTV  367 (1209)
Q Consensus       363 ai~~~  367 (1209)
                      .|..+
T Consensus       263 dl~~l  267 (495)
T TIGR01241       263 DLANL  267 (495)
T ss_pred             HHHHH
Confidence            44443

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.46  E-value=0.0037  Score=64.53  Aligned_cols=54  Identities=17%  Similarity=0.247  Sum_probs=42.9

Q ss_pred             ccccccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .+.....++|-+..++.|++-..    .....-+.+||..|+|||++++.+.+....+
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            34457789999999888887543    3445677899999999999999999988764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.43  E-value=0.00093  Score=78.98  Aligned_cols=161  Identities=19%  Similarity=0.189  Sum_probs=96.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ...+.|+|.+|+|||+|++.+++....+..-..+++++...      +...+...+...         ......+.+.  
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~------~~~~~~~~~~~~---------~~~~~~~~~~--  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEK------FTNDFVNALRNN---------TMEEFKEKYR--  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHH------HHHHHHHHHHcC---------cHHHHHHHHh--
Confidence            35689999999999999999999987542223566666532      333333333211         1233444454  


Q ss_pred             CeEEEEEeCCCcccC---c-cccCCCCCCCCccccccccCCcEEEEeccchhhh--------cccCCcceEEEcCCCCHH
Q 038494          260 KRVLIILDNIWKKLG---L-EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL--------TNDMNSQKIFLIEVLSKE  327 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~---~-~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~--------~~~~~~~~~~~l~~L~~~  327 (1209)
                      +.-+||+||++....   + +.+...+....       ..|..+|+||....-.        ........++++++.+.+
T Consensus       211 ~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~-------~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~  283 (450)
T PRK00149        211 SVDVLLIDDIQFLAGKERTQEEFFHTFNALH-------EAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLE  283 (450)
T ss_pred             cCCEEEEehhhhhcCCHHHHHHHHHHHHHHH-------HCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHH
Confidence            345899999976421   1 12211111000       1345688887653211        111233468999999999


Q ss_pred             HHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          328 EALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       328 e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      +-..++.+.+.... ..-.+++...|++.++|..-.+.
T Consensus       284 ~r~~il~~~~~~~~-~~l~~e~l~~ia~~~~~~~R~l~  320 (450)
T PRK00149        284 TRIAILKKKAEEEG-IDLPDEVLEFIAKNITSNVRELE  320 (450)
T ss_pred             HHHHHHHHHHHHcC-CCCCHHHHHHHHcCcCCCHHHHH
Confidence            99999999876321 22235678889998888766443

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.43  E-value=0.0009  Score=84.68  Aligned_cols=158  Identities=15%  Similarity=0.178  Sum_probs=92.2

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----C-EEEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----D-KVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~-~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ....++||+.++.++++.|......-+.++|.+|+|||++|+.++.........    + .++++.++.-      ..  
T Consensus       176 ~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l------~a--  247 (857)
T PRK10865        176 KLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL------VA--  247 (857)
T ss_pred             CCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh------hh--
Confidence            356789999999999999987666678899999999999999999887532111    2 2333333321      00  


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCcccC---------ccccCCCCCCCCccccccccCCcEEEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKLG---------LEEIGIPFGDVDEKDRKQDLRRRTIIL  301 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~---------~~~l~~~~~~~~~~~~~~~~~~s~ilv  301 (1209)
                        .   .... ...++.+..+.+.+. .+++.+|++|++.....         ...+..+....         ..-++|-
T Consensus       248 --g---~~~~-g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~---------g~l~~Ig  312 (857)
T PRK10865        248 --G---AKYR-GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR---------GELHCVG  312 (857)
T ss_pred             --c---cchh-hhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc---------CCCeEEE
Confidence              0   0000 111344555555543 24679999999986521         11111111111         2345666


Q ss_pred             eccchhhh------cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          302 TSRSKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       302 TtR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      +|...+..      .........+.+..-+.++...++....
T Consensus       313 aTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        313 ATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             cCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            55544321      0011233456677778888888886554

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

Probab=97.42  E-value=9.4e-05  Score=90.12  Aligned_cols=126  Identities=22%  Similarity=0.271  Sum_probs=76.3

Q ss_pred             hcCCeEEEEccCCCC--ccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCC
Q 038494          517 IQKGAIAISIPYGDI--QELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINL  592 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~--~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L  592 (1209)
                      ...+++++.+.+...  ...+.  ..-+|.|++|.+.+-.....+ -...+.++++|+.||+|+++++.+ ..+++|+||
T Consensus       120 sr~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~d-F~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknL  197 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDD-FSQLCASFPNLRSLDISGTNISNL-SGISRLKNL  197 (699)
T ss_pred             HHHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchh-HHHHhhccCccceeecCCCCccCc-HHHhccccH
Confidence            345778888876422  11111  125788888888763211111 123456778888888888888877 557788888


Q ss_pred             cEEeccCcccCC---cccccCCCCCCEEEccCCCCCccchh-------ccCCCCCCEEeccC
Q 038494          593 QTLCLDWCQLED---VAAIGQLKKLEILSFRYSDIKQLPLE-------IGQLAQLQLLDLSN  644 (1209)
Q Consensus       593 ~~L~l~~~~l~~---l~~i~~L~~L~~L~l~~~~~~~lp~~-------i~~L~~L~~L~l~~  644 (1209)
                      ++|.+.+=.+..   +..+.+|++|++||+|......-+.-       -..|++|+.||.++
T Consensus       198 q~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  198 QVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             HHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence            888877766543   25677788888888877543322211       12355666666554

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

Probab=97.41  E-value=9.4e-05  Score=90.12  Aligned_cols=132  Identities=19%  Similarity=0.189  Sum_probs=100.5

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc--cccccccCCCCCcEEeccCcccCCcccccCCCCCCEE
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS--SLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEIL  617 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L  617 (1209)
                      -.+|++|++.+.......++..+-..++.||.|.+++-.+.  ++..-..+++||+.||++++.++.+.++++|++|+.|
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L  200 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVL  200 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHH
Confidence            46899999988765566677777778999999999997764  3445567899999999999999999999999999999


Q ss_pred             EccCCCCCccc--hhccCCCCCCEEeccCCCCCccc--Cc---hhhcCCCCCcEEECCCCC
Q 038494          618 SFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVI--AP---NVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       618 ~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~--~~---~~l~~L~~L~~L~l~~~~  671 (1209)
                      .+++-.+..-+  ..+-+|++|++||++........  ..   +.-..|++|+.|+.+++.
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            99876665432  35678999999999973332221  10   111348999999998754

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.41  E-value=0.0012  Score=77.23  Aligned_cols=163  Identities=15%  Similarity=0.214  Sum_probs=96.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ...+.|+|.+|+|||+|++.+++.......-..++|++.      .++...+...+...         ......+.+. .
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~---------~~~~f~~~~~-~  193 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG---------KLNEFREKYR-K  193 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc---------cHHHHHHHHH-h
Confidence            346899999999999999999998765321135677765      34555555554321         1122333333 2


Q ss_pred             CeEEEEEeCCCcccC---c-cccCCCCCCCCccccccccCCcEEEEeccch-hhh----cc---cCCcceEEEcCCCCHH
Q 038494          260 KRVLIILDNIWKKLG---L-EEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLL----TN---DMNSQKIFLIEVLSKE  327 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~---~-~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~----~~---~~~~~~~~~l~~L~~~  327 (1209)
                      +.-+|++||++....   + +.+...+....       ..|..||+||... .-.    ..   ......++++++.+.+
T Consensus       194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~-------~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e  266 (440)
T PRK14088        194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELH-------DSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEE  266 (440)
T ss_pred             cCCEEEEechhhhcCcHHHHHHHHHHHHHHH-------HcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHH
Confidence            456899999985421   1 11211111100       1355788888532 111    10   1233457899999999


Q ss_pred             HHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          328 EALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       328 e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      .-..++.+.+.... -.--++++..|++.+.|.--.+.-
T Consensus       267 ~r~~IL~~~~~~~~-~~l~~ev~~~Ia~~~~~~~R~L~g  304 (440)
T PRK14088        267 TRKKIARKMLEIEH-GELPEEVLNFVAENVDDNLRRLRG  304 (440)
T ss_pred             HHHHHHHHHHHhcC-CCCCHHHHHHHHhccccCHHHHHH
Confidence            99999998875321 112356788888888876544433

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.41  E-value=0.0018  Score=82.38  Aligned_cols=158  Identities=15%  Similarity=0.204  Sum_probs=93.2

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----CE-EEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----DK-VVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~-~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ....++||+.++.++++.|.......+.++|.+|+|||++|..++++......+    +. ++.+.++      .+.   
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~------~l~---  241 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMG------ALI---  241 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHH------HHh---
Confidence            345789999999999999987666677799999999999999999887532111    22 2233221      111   


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhc-CCeEEEEEeCCCcccC---------ccccCCCCCCCCccccccccCCcEEEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKLG---------LEEIGIPFGDVDEKDRKQDLRRRTIIL  301 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~---------~~~l~~~~~~~~~~~~~~~~~~s~ilv  301 (1209)
                       .  + ... ....+..+..+.+.+.. +++.+|++|++.....         ...+..+....         ..-++|-
T Consensus       242 -a--~-~~~-~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~---------g~i~~Ig  307 (852)
T TIGR03346       242 -A--G-AKY-RGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR---------GELHCIG  307 (852)
T ss_pred             -h--c-chh-hhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc---------CceEEEE
Confidence             0  0 000 01114455566666642 4689999999986521         01111111110         2344555


Q ss_pred             eccchhhh------cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          302 TSRSKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       302 TtR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      +|...+.-      .........+.++..+.++...++....
T Consensus       308 aTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       308 ATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             eCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            55543321      0011234568899999999999887654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.38  E-value=0.0046  Score=68.16  Aligned_cols=173  Identities=16%  Similarity=0.169  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhcc-----------------cCCEEEEEEcCCCcCHHHH
Q 038494          166 KLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDK-----------------VFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       166 ~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~-----------------~f~~~~wv~~s~~~~~~~l  227 (1209)
                      ...+.+...+..++.+ .+.++|+.|+||+++|..+++..-.+.                 |.| ..|+.......    
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD-~~~i~~~p~~~----   85 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPD-LQLVSFIPNRT----   85 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCC-EEEEecCCCcc----
Confidence            3456677777666554 688999999999999999998764322                 111 22221100000    


Q ss_pred             HHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE
Q 038494          228 QDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL  301 (1209)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv  301 (1209)
                              +. ........+.++.+.+.+.    .+++-++|+|+++...  .-..+...+-.-.        .++.+|+
T Consensus        86 --------~~-k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp--------~~~~fiL  148 (319)
T PRK08769         86 --------GD-KLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPS--------PGRYLWL  148 (319)
T ss_pred             --------cc-cccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCC--------CCCeEEE
Confidence                    00 0000112556666666554    2466799999998763  2233322222211        4666666


Q ss_pred             eccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          302 TSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       302 TtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      +|.. ..+..+.......+.+.+++.+++.+.+... +  .    .+..+..++..++|.|+....+
T Consensus       149 ~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~-~--~----~~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        149 ISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQ-G--V----SERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             EECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHc-C--C----ChHHHHHHHHHcCCCHHHHHHH
Confidence            6654 4444444456778999999999999888753 1  1    1234668899999999866443

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

Probab=97.37  E-value=0.00025  Score=52.25  Aligned_cols=37  Identities=30%  Similarity=0.453  Sum_probs=17.0

Q ss_pred             CCcEEeccCcccCCccc-ccCCCCCCEEEccCCCCCcc
Q 038494          591 NLQTLCLDWCQLEDVAA-IGQLKKLEILSFRYSDIKQL  627 (1209)
Q Consensus       591 ~L~~L~l~~~~l~~l~~-i~~L~~L~~L~l~~~~~~~l  627 (1209)
                      +|++|++++|.++.++. +++|++|++|++++|.++.+
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCC
Confidence            44555555555554422 55555555555555544433

...

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

Probab=97.36  E-value=3.7e-05  Score=81.31  Aligned_cols=38  Identities=24%  Similarity=0.271  Sum_probs=18.6

Q ss_pred             ccCCCCCCEEEccCCCCC-----ccchhccCCCCCCEEeccCC
Q 038494          608 IGQLKKLEILSFRYSDIK-----QLPLEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       608 i~~L~~L~~L~l~~~~~~-----~lp~~i~~L~~L~~L~l~~~  645 (1209)
                      +-..++|++||||.|-+.     .+-.-+..++.|++|.+.+|
T Consensus        88 L~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~  130 (382)
T KOG1909|consen   88 LLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNC  130 (382)
T ss_pred             HhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcC
Confidence            334445555555555332     11122445566666666654

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.35  E-value=0.0002  Score=88.15  Aligned_cols=158  Identities=17%  Similarity=0.223  Sum_probs=93.4

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc-c---CCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-V---FDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-~---f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ...++||++++.++++.|......-+.++|.+|+|||++|+.+++...... .   .++.+|..     +...+    ..
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----la  255 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----LA  255 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----hc
Confidence            456899999999999998875556667999999999999999998764322 1   13444421     11111    10


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----------ccccCCCCCCCCccccccccCCcEEEEec
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----------LEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----------~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                        + ... ....+.....+.+.+.+.++.+|++|+++....          ...+..++..         ...-++|-+|
T Consensus       256 --G-~~~-~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~---------~g~i~vIgAT  322 (758)
T PRK11034        256 --G-TKY-RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS---------SGKIRVIGST  322 (758)
T ss_pred             --c-cch-hhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh---------CCCeEEEecC
Confidence              0 000 011144555666666545678999999975411          0001111110         1234455555


Q ss_pred             cchhhhc------ccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          304 RSKHLLT------NDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       304 R~~~v~~------~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      ...+...      ........+.+++.+.+++..++....
T Consensus       323 t~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        323 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             ChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            4433210      011244689999999999999998654

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.34  E-value=0.0028  Score=71.19  Aligned_cols=163  Identities=13%  Similarity=0.139  Sum_probs=91.0

Q ss_pred             cchhh-HHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          159 EAFDS-RMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       159 ~~~~g-R~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ..++| .+..++.+.+.+..++. ....++|+.|+||||+|+.+++..-.....+..   .+..    -..-+.+...-.
T Consensus         5 ~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~---~cg~----C~~c~~~~~~~h   77 (329)
T PRK08058          5 EQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE---PCGT----CTNCKRIDSGNH   77 (329)
T ss_pred             HHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC---CCCc----CHHHHHHhcCCC
Confidence            34566 77777888888876655 456899999999999999999886432211100   0000    000000000000


Q ss_pred             CC-----CCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          237 LN-----FDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       237 ~~-----~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      .+     ........+.++.+.+.+.    .+.+-++|+|+++...  ..+.+...+-...        .++.+|++|.+
T Consensus        78 pD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp--------~~~~~Il~t~~  149 (329)
T PRK08058         78 PDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPS--------GGTTAILLTEN  149 (329)
T ss_pred             CCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCC--------CCceEEEEeCC
Confidence            00     0000111344555555443    2455689999987663  2333333332222        56666766655


Q ss_pred             h-hhhcccCCcceEEEcCCCCHHHHHHHHHHH
Q 038494          306 K-HLLTNDMNSQKIFLIEVLSKEEALQFFEKI  336 (1209)
Q Consensus       306 ~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~  336 (1209)
                      . .+..........+++.+++.++..+.+.+.
T Consensus       150 ~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        150 KHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             hHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            4 333333456688999999999998888653

>TIGR00763 lon ATP-dependent protease La

Probab=97.32  E-value=0.011  Score=74.63  Aligned_cols=48  Identities=35%  Similarity=0.350  Sum_probs=38.6

Q ss_pred             cchhhHHHHHHHHHHHHh------CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          159 EAFDSRMKLFQDVVEALR------NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..++|.++.++.+.+++.      ..+.+++.++|++|+|||++|+.+++....
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~  373 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNR  373 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            346788888888888764      123468999999999999999999998753

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>PRK06620 hypothetical protein; Validated

Probab=97.31  E-value=0.00062  Score=70.98  Aligned_cols=137  Identities=15%  Similarity=0.068  Sum_probs=79.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      +.+.|+|++|+|||+|++.+++....       .++.  ..+.                    . .       +.+.  .
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-------~~~~--~~~~--------------------~-~-------~~~~--~   85 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-------YIIK--DIFF--------------------N-E-------EILE--K   85 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-------EEcc--hhhh--------------------c-h-------hHHh--c
Confidence            56899999999999999987665431       1211  0000                    0 0       0111  2


Q ss_pred             eEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhhc------ccCCcceEEEcCCCCHHHHHHHHH
Q 038494          261 RVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT------NDMNSQKIFLIEVLSKEEALQFFE  334 (1209)
Q Consensus       261 ~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~------~~~~~~~~~~l~~L~~~e~~~lf~  334 (1209)
                      .-++++||++...+ ..+...+...       ...|..+|+|++.....-      ..+...-+++++++++++-..++.
T Consensus        86 ~d~lliDdi~~~~~-~~lf~l~N~~-------~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~  157 (214)
T PRK06620         86 YNAFIIEDIENWQE-PALLHIFNII-------NEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIF  157 (214)
T ss_pred             CCEEEEeccccchH-HHHHHHHHHH-------HhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHH
Confidence            35788999974321 1111111100       015778999998654310      012234589999999999888888


Q ss_pred             HHhCCCCCCCcchHHHHHHHHHhCCChhHHH
Q 038494          335 KIVGNSAKASAFQPLADEIVGKCGGLPVALS  365 (1209)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~i~~~~~glPLai~  365 (1209)
                      +.+.... -.--++++.-|++.+.|---.+.
T Consensus       158 k~~~~~~-l~l~~ev~~~L~~~~~~d~r~l~  187 (214)
T PRK06620        158 KHFSISS-VTISRQIIDFLLVNLPREYSKII  187 (214)
T ss_pred             HHHHHcC-CCCCHHHHHHHHHHccCCHHHHH
Confidence            8765321 12235677778887776544443

>PRK08181 transposase; Validated

Probab=97.31  E-value=0.0025  Score=68.58  Aligned_cols=82  Identities=21%  Similarity=0.178  Sum_probs=51.2

Q ss_pred             HHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHH
Q 038494          170 DVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRA  249 (1209)
Q Consensus       170 ~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~  249 (1209)
                      ...+|+..  ..-+.++|++|+|||.||..+++....+  ...++|+++      .++...+.....         ....
T Consensus        98 ~~~~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~~------~~L~~~l~~a~~---------~~~~  158 (269)
T PRK08181         98 AGDSWLAK--GANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTRT------TDLVQKLQVARR---------ELQL  158 (269)
T ss_pred             HHHHHHhc--CceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeeeH------HHHHHHHHHHHh---------CCcH
Confidence            33356543  3468999999999999999999877643  234566654      445555543321         0112


Q ss_pred             HHHHHHHhcCCeEEEEEeCCCcc
Q 038494          250 KQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       250 ~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ....+.+.  +.-|||+||+...
T Consensus       159 ~~~l~~l~--~~dLLIIDDlg~~  179 (269)
T PRK08181        159 ESAIAKLD--KFDLLILDDLAYV  179 (269)
T ss_pred             HHHHHHHh--cCCEEEEeccccc
Confidence            23444553  4469999999654

>CHL00176 ftsH cell division protein; Validated

Probab=97.31  E-value=0.0034  Score=76.06  Aligned_cols=173  Identities=14%  Similarity=0.194  Sum_probs=95.5

Q ss_pred             ccchhhHHHHHHHHHH---HHhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVE---ALRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~---~L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ..++.|.++.++++.+   ++.+.         ..+-|.++|++|+|||++|+.++......       |+.++..    
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-------~i~is~s----  250 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-------FFSISGS----  250 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-------eeeccHH----
Confidence            4456676655555444   44322         13468899999999999999998876431       2333211    


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----------------ccccCCCCCCCCccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----------------LEEIGIPFGDVDEKD  289 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----------------~~~l~~~~~~~~~~~  289 (1209)
                      ++....   .+.       ....++.+.+......+++|++||++....                +..+.......    
T Consensus       251 ~f~~~~---~g~-------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~----  316 (638)
T CHL00176        251 EFVEMF---VGV-------GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGF----  316 (638)
T ss_pred             HHHHHh---hhh-------hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccc----
Confidence            111100   010       123344455555556889999999975411                01111000000    


Q ss_pred             cccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC
Q 038494          290 RKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG  359 (1209)
Q Consensus       290 ~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g  359 (1209)
                        ....+-.||.||...+.....+    .-...+.++..+.++-.++++.++......  .......+++.+.|
T Consensus       317 --~~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~--~d~~l~~lA~~t~G  386 (638)
T CHL00176        317 --KGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS--PDVSLELIARRTPG  386 (638)
T ss_pred             --cCCCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc--hhHHHHHHHhcCCC
Confidence              0113556666776644332111    223678888899999999999887642211  12345677777777

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.31  E-value=0.016  Score=59.69  Aligned_cols=190  Identities=18%  Similarity=0.235  Sum_probs=109.5

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc-CCCcCHHHHHHHHHHHhCCCCCCCCC--
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV-TENPDVQKIQDKLASDLDLNFDLNDS--  244 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~-s~~~~~~~l~~~i~~~l~~~~~~~~~--  244 (1209)
                      +..+...+ .++..++.++|.-|.|||.+++........+    .++=+.+ .+..+...+...|...+..+......  
T Consensus        40 l~~l~~~i-~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d----~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~  114 (269)
T COG3267          40 LLMLHAAI-ADGQGILAVTGEVGSGKTVLRRALLASLNED----QVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAV  114 (269)
T ss_pred             HHHHHHHH-hcCCceEEEEecCCCchhHHHHHHHHhcCCC----ceEEEEecCcchhHHHHHHHHHHHhccCccchhHHH
Confidence            33343333 3455699999999999999999555544422    1222333 34557788888888888763222211  


Q ss_pred             hHHHHHHHHHHHhcCCe-EEEEEeCCCccc--CccccCC---CCCCCCccccccccCCcEEEEec---cch---hhhccc
Q 038494          245 KPHRAKQLCQRLTKEKR-VLIILDNIWKKL--GLEEIGI---PFGDVDEKDRKQDLRRRTIILTS---RSK---HLLTND  312 (1209)
Q Consensus       245 ~~~~~~~l~~~l~~~k~-~LlvlDdv~~~~--~~~~l~~---~~~~~~~~~~~~~~~~s~ilvTt---R~~---~v~~~~  312 (1209)
                      .....+.+....++++| ..+++||.....  ..+.+..   .-.+..       ..-+.+++-=   +.+   .+....
T Consensus       115 ~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~-------~~l~ivL~Gqp~L~~~lr~~~l~e~  187 (269)
T COG3267         115 LEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSS-------KLLSIVLIGQPKLRPRLRLPVLREL  187 (269)
T ss_pred             HHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhccccc-------CceeeeecCCcccchhhchHHHHhh
Confidence            12233345555556777 999999988662  2332211   111111       0111222211   110   011111


Q ss_pred             CCcceE-EEcCCCCHHHHHHHHHHHhCCCCC--CCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          313 MNSQKI-FLIEVLSKEEALQFFEKIVGNSAK--ASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       313 ~~~~~~-~~l~~L~~~e~~~lf~~~~~~~~~--~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      ...... |.+.|++.++...++..+......  +--..+....|.....|.|.+|..++.
T Consensus       188 ~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         188 EQRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             hheEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            122234 999999999999999988763322  222355677899999999999988764

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.29  E-value=0.0025  Score=75.39  Aligned_cols=159  Identities=16%  Similarity=0.159  Sum_probs=94.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|..|+|||.|++.+++.......-..+++++.      .++...+...+..         .......+++.  +
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~---------~~~~~f~~~y~--~  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRD---------GKGDSFRRRYR--E  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHh---------ccHHHHHHHhh--c
Confidence            46899999999999999999998764221234566654      3344444433321         11223344443  3


Q ss_pred             eEEEEEeCCCccc---Ccc-ccCCCCCCCCccccccccCCcEEEEeccchh--hh------cccCCcceEEEcCCCCHHH
Q 038494          261 RVLIILDNIWKKL---GLE-EIGIPFGDVDEKDRKQDLRRRTIILTSRSKH--LL------TNDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       261 ~~LlvlDdv~~~~---~~~-~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~--v~------~~~~~~~~~~~l~~L~~~e  328 (1209)
                      .=+||+||++...   .|+ .+...+....       ..|..|||||+...  ..      ...+...-++++++.+.+.
T Consensus       378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~-------e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~Et  450 (617)
T PRK14086        378 MDILLVDDIQFLEDKESTQEEFFHTFNTLH-------NANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELET  450 (617)
T ss_pred             CCEEEEehhccccCCHHHHHHHHHHHHHHH-------hcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHH
Confidence            4588999998652   122 1211111111       14567889887632  10      1112345688999999999


Q ss_pred             HHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          329 ALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       329 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      -.+++.+++.... ..--++++.-|++.+.+..-.|
T Consensus       451 R~aIL~kka~~r~-l~l~~eVi~yLa~r~~rnvR~L  485 (617)
T PRK14086        451 RIAILRKKAVQEQ-LNAPPEVLEFIASRISRNIREL  485 (617)
T ss_pred             HHHHHHHHHHhcC-CCCCHHHHHHHHHhccCCHHHH
Confidence            9999998876332 1223567777777776654433

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.0063  Score=67.20  Aligned_cols=176  Identities=10%  Similarity=0.131  Sum_probs=102.2

Q ss_pred             HHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC------CC
Q 038494          168 FQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN------FD  240 (1209)
Q Consensus       168 ~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~------~~  240 (1209)
                      .+.+...+..+.. ..+.+.|+.|+||+++|..++...-.......       ...+.-..-+.+...-..+      ..
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p~~   83 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-------QPCGQCHSCHLFQAGNHPDFHILEPID   83 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEcccc
Confidence            4566666665543 57779999999999999999987754221110       0000001111111110000      00


Q ss_pred             CCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccch-hhhcccC
Q 038494          241 LNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLLTNDM  313 (1209)
Q Consensus       241 ~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~~~~~  313 (1209)
                      ......+.++.+.+.+.    .+++-++|+|+++...  ....+...+-...        .+..+|++|.+. .+..+..
T Consensus        84 ~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp--------~~~~fiL~t~~~~~llpTI~  155 (325)
T PRK06871         84 NKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPR--------PNTYFLLQADLSAALLPTIY  155 (325)
T ss_pred             CCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCC--------CCeEEEEEECChHhCchHHH
Confidence            11122566666666664    3566788999998763  3334433332222        456666666654 4444444


Q ss_pred             CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          314 NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       314 ~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .....+.+.+++.++..+.+......      ....+...++.++|.|+..
T Consensus       156 SRC~~~~~~~~~~~~~~~~L~~~~~~------~~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        156 SRCQTWLIHPPEEQQALDWLQAQSSA------EISEILTALRINYGRPLLA  200 (325)
T ss_pred             hhceEEeCCCCCHHHHHHHHHHHhcc------ChHHHHHHHHHcCCCHHHH
Confidence            56779999999999999988876421      1223567788999999633

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.25  E-value=0.001  Score=79.72  Aligned_cols=53  Identities=21%  Similarity=0.309  Sum_probs=43.5

Q ss_pred             cccccccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          153 MQAKDFEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       153 ~~~~~~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..|....+++|.++.++++..|+..     ...+++.|+|++|+||||+++.++....
T Consensus        78 yrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        78 YKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3455577899999999999999874     2345799999999999999999997764

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=97.23  E-value=9.1e-06  Score=93.10  Aligned_cols=122  Identities=25%  Similarity=0.223  Sum_probs=82.8

Q ss_pred             cCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEE
Q 038494          518 QKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTL  595 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L  595 (1209)
                      |..+..++.+.|.+..+.... -++.+++|++++|.  .....  .+..+.+|+.|||++|.+..+|. +...++ |+.|
T Consensus       163 Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk--~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L  237 (1096)
T KOG1859|consen  163 WNKLATASFSYNRLVLMDESLQLLPALESLNLSHNK--FTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLL  237 (1096)
T ss_pred             hhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhh--hhhhH--HHHhcccccccccccchhccccccchhhhh-heee
Confidence            444555666666655554444 36788888888874  33332  35678888888888888887775 333444 8888


Q ss_pred             eccCcccCCcccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccC
Q 038494          596 CLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       596 ~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~  644 (1209)
                      .+++|.++.+.++.+|++|+.||+++|-+....  .-++.|..|+.|++.+
T Consensus       238 ~lrnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeG  288 (1096)
T KOG1859|consen  238 NLRNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEG  288 (1096)
T ss_pred             eecccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcC
Confidence            888888888888888888888888887554221  1245667777788877

>PRK10536 hypothetical protein; Provisional

Probab=97.23  E-value=0.0043  Score=64.98  Aligned_cols=57  Identities=19%  Similarity=0.280  Sum_probs=42.7

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEE
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMA  216 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  216 (1209)
                      ...+.+|......+..++.+.  ..|.++|.+|+|||+||..++.+.-....|..++-.
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~  110 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVT  110 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEe
Confidence            445667888888888888764  499999999999999999999864322335554433

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.20  E-value=0.0034  Score=72.21  Aligned_cols=166  Identities=22%  Similarity=0.238  Sum_probs=96.9

Q ss_pred             hHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCCCC
Q 038494          163 SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNFDL  241 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~  241 (1209)
                      .|...+.++.+.+..... ++.|+|+-++||||+++.+.......     .+++...+.. +..++ .+           
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l-~d-----------   82 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIEL-LD-----------   82 (398)
T ss_pred             hHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhH-HH-----------
Confidence            455556666666654433 99999999999999996665554432     4555443321 11111 11           


Q ss_pred             CCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhh-----cccCCcc
Q 038494          242 NDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-----TNDMNSQ  316 (1209)
Q Consensus       242 ~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-----~~~~~~~  316 (1209)
                            ....+...- ..++..|+||.|.....|+.....+.+..        +. +|++|+-+....     ....+..
T Consensus        83 ------~~~~~~~~~-~~~~~yifLDEIq~v~~W~~~lk~l~d~~--------~~-~v~itgsss~ll~~~~~~~L~GR~  146 (398)
T COG1373          83 ------LLRAYIELK-EREKSYIFLDEIQNVPDWERALKYLYDRG--------NL-DVLITGSSSSLLSKEISESLAGRG  146 (398)
T ss_pred             ------HHHHHHHhh-ccCCceEEEecccCchhHHHHHHHHHccc--------cc-eEEEECCchhhhccchhhhcCCCc
Confidence                  111111111 12668999999999999988766665544        34 788887765433     2223566


Q ss_pred             eEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          317 KIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       317 ~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ..+++.||+..|-..+-..    .......+. .-+-.-..||.|-++..-
T Consensus       147 ~~~~l~PlSF~Efl~~~~~----~~~~~~~~~-~f~~Yl~~GGfP~~v~~~  192 (398)
T COG1373         147 KDLELYPLSFREFLKLKGE----EIEPSKLEL-LFEKYLETGGFPESVKAD  192 (398)
T ss_pred             eeEEECCCCHHHHHhhccc----ccchhHHHH-HHHHHHHhCCCcHHHhCc
Confidence            7899999999987765320    000101111 222233568888776543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.20  E-value=0.016  Score=63.97  Aligned_cols=164  Identities=11%  Similarity=0.133  Sum_probs=100.7

Q ss_pred             HHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc-------------------cCCEEEEEEcCCCcCHHH
Q 038494          167 LFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK-------------------VFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       167 ~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~~wv~~s~~~~~~~  226 (1209)
                      ..+.+.+.+..++. ..+.++|+.|+||+++|..+++..-..+                   |.| ..|+.-..      
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~------   83 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPD-LHVIKPEK------   83 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCC-EEEEecCc------
Confidence            34566666665554 5788999999999999999998764322                   122 11221100      


Q ss_pred             HHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEE
Q 038494          227 IQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTII  300 (1209)
Q Consensus       227 l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~il  300 (1209)
                                   ....-..+.++.+.+.+.    .+.+-++|+|+++...  ....+...+-...        .++.+|
T Consensus        84 -------------~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp--------~~t~fi  142 (319)
T PRK06090         84 -------------EGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPA--------PNCLFL  142 (319)
T ss_pred             -------------CCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCC--------CCeEEE
Confidence                         001112455555555553    2456789999998763  3444433332222        455555


Q ss_pred             Eeccc-hhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          301 LTSRS-KHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       301 vTtR~-~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ++|.+ ..+..+.......+.+.+++.+++.+.+.....   +      .+..+++.++|.|+....+
T Consensus       143 L~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~~---~------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        143 LVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQGI---T------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             EEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcCC---c------hHHHHHHHcCCCHHHHHHH
Confidence            55554 455555456678999999999999998876421   1      2357789999999866544

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.19  E-value=0.0029  Score=73.65  Aligned_cols=154  Identities=18%  Similarity=0.190  Sum_probs=89.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|..|+|||+|++.+++.....  ...+++++.      ..+...+...+...         ........+.  .
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~~------~~f~~~~~~~l~~~---------~~~~f~~~~~--~  202 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVRS------ELFTEHLVSAIRSG---------EMQRFRQFYR--N  202 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEeeH------HHHHHHHHHHHhcc---------hHHHHHHHcc--c
Confidence            568899999999999999999988643  234556653      33444444444311         1122333332  3


Q ss_pred             eEEEEEeCCCcccCc----cccCCCCCCCCccccccccCCcEEEEeccchhh-h----c---ccCCcceEEEcCCCCHHH
Q 038494          261 RVLIILDNIWKKLGL----EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL-L----T---NDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       261 ~~LlvlDdv~~~~~~----~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v-~----~---~~~~~~~~~~l~~L~~~e  328 (1209)
                      .-+|++||+......    +.+...+...       ...|..||+||..... .    .   ........+++.+++.++
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l-------~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~  275 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSL-------HTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEG  275 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHH-------HHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHH
Confidence            458899999765321    1111111100       0145678888865311 1    0   112334689999999999


Q ss_pred             HHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          329 ALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       329 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      -..++.+.+.... ..--+++..-|++.+.+.-
T Consensus       276 r~~iL~~k~~~~~-~~l~~evl~~la~~~~~di  307 (445)
T PRK12422        276 LRSFLERKAEALS-IRIEETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHHHHHHcC-CCCCHHHHHHHHHhcCCCH
Confidence            9999998875322 1222456666777776543

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

Probab=97.17  E-value=5e-05  Score=88.89  Aligned_cols=80  Identities=29%  Similarity=0.429  Sum_probs=39.4

Q ss_pred             cCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEec
Q 038494          564 EGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDL  642 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l  642 (1209)
                      ..+.+|++|++++|.|+++.. +..+..|+.|++++|.+..+..+..+..|+.+++++|.+..+... ...+.+|+.+++
T Consensus       115 ~~~~~L~~L~ls~N~I~~i~~-l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l  193 (414)
T KOG0531|consen  115 SSLVNLQVLDLSFNKITKLEG-LSTLTLLKELNLSGNLISDISGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDL  193 (414)
T ss_pred             hhhhcchheeccccccccccc-hhhccchhhheeccCcchhccCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhc
Confidence            345555555555555554432 444444555555555555554444455555555555554444332 244445555555


Q ss_pred             cC
Q 038494          643 SN  644 (1209)
Q Consensus       643 ~~  644 (1209)
                      .+
T Consensus       194 ~~  195 (414)
T KOG0531|consen  194 GG  195 (414)
T ss_pred             cC
Confidence            44

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.16  E-value=0.00074  Score=64.99  Aligned_cols=69  Identities=22%  Similarity=0.303  Sum_probs=43.8

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC-e
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK-R  261 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k-~  261 (1209)
                      |.|+|++|+|||++|+.+++.....     ++.++.+.-.+.                ........+..+.+...... +
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~-----~~~i~~~~~~~~----------------~~~~~~~~i~~~~~~~~~~~~~   59 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP-----FIEIDGSELISS----------------YAGDSEQKIRDFFKKAKKSAKP   59 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE-----EEEEETTHHHTS----------------STTHHHHHHHHHHHHHHHTSTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc-----cccccccccccc----------------cccccccccccccccccccccc
Confidence            5799999999999999999997522     344554332100                11111334444444444333 7


Q ss_pred             EEEEEeCCCcc
Q 038494          262 VLIILDNIWKK  272 (1209)
Q Consensus       262 ~LlvlDdv~~~  272 (1209)
                      .+|++||++..
T Consensus        60 ~vl~iDe~d~l   70 (132)
T PF00004_consen   60 CVLFIDEIDKL   70 (132)
T ss_dssp             EEEEEETGGGT
T ss_pred             eeeeeccchhc
Confidence            99999999865

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.11  E-value=0.013  Score=65.95  Aligned_cols=135  Identities=19%  Similarity=0.238  Sum_probs=81.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ....+.|||..|.|||.|++++++.......=..+++++      .+.....+...+.         ........+..  
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~------se~f~~~~v~a~~---------~~~~~~Fk~~y--  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT------SEDFTNDFVKALR---------DNEMEKFKEKY--  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc------HHHHHHHHHHHHH---------hhhHHHHHHhh--
Confidence            367899999999999999999999987642222444443      2333344443332         12233344433  


Q ss_pred             CCeEEEEEeCCCcccC---cc-ccCCCCCCCCccccccccCCcEEEEeccchhhhc--------ccCCcceEEEcCCCCH
Q 038494          259 EKRVLIILDNIWKKLG---LE-EIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT--------NDMNSQKIFLIEVLSK  326 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~~~---~~-~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~--------~~~~~~~~~~l~~L~~  326 (1209)
                       .--++++||++....   |+ .+...+..-.       ..|-.||+|++.....-        ......-++++.+.+.
T Consensus       175 -~~dlllIDDiq~l~gk~~~qeefFh~FN~l~-------~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~  246 (408)
T COG0593         175 -SLDLLLIDDIQFLAGKERTQEEFFHTFNALL-------ENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDD  246 (408)
T ss_pred             -ccCeeeechHhHhcCChhHHHHHHHHHHHHH-------hcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCH
Confidence             124889999986532   22 2222222111       13458999997643211        1123446899999999


Q ss_pred             HHHHHHHHHHhC
Q 038494          327 EEALQFFEKIVG  338 (1209)
Q Consensus       327 ~e~~~lf~~~~~  338 (1209)
                      +....++.+.+.
T Consensus       247 e~r~aiL~kka~  258 (408)
T COG0593         247 ETRLAILRKKAE  258 (408)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998765

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.01  Score=71.18  Aligned_cols=185  Identities=14%  Similarity=0.094  Sum_probs=111.7

Q ss_pred             cchhhHH---HHHHHHHHHHhCCC---------ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHH
Q 038494          159 EAFDSRM---KLFQDVVEALRNDK---------LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       159 ~~~~gR~---~~~~~l~~~L~~~~---------~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~  226 (1209)
                      .++.|-+   +|+.++++.|.+++         .+=+-++|++|+|||-||++++-...+-       |++++...    
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGSE----  379 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGSE----  379 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechHH----
Confidence            4455654   45566666666421         3567899999999999999998877652       45554421    


Q ss_pred             HHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcccc-------c----cccC
Q 038494          227 IQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR-------K----QDLR  295 (1209)
Q Consensus       227 l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~-------~----~~~~  295 (1209)
                          ..+.+....      ...++.+...-+...+++|.+|+++....-.. + ....+...++       +    .+..
T Consensus       380 ----FvE~~~g~~------asrvr~lf~~ar~~aP~iifideida~~~~r~-G-~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  380 ----FVEMFVGVG------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRG-G-KGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             ----HHHHhcccc------hHHHHHHHHHhhccCCeEEEeccccccccccc-c-cccCCCChHHHHHHHHHHHHhcCCcC
Confidence                122221111      45667777777778899999999986632221 1 0011111111       0    0112


Q ss_pred             Cc--EEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          296 RR--TIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       296 ~s--~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      +.  -++-+|...++...+.    .-...+.++.-+..+..++|.-++.......+..++.+ |+...-|.+=|....
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gadl~n  524 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGADLAN  524 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHHHHh
Confidence            22  2333565555543221    23467888888888999999999875554456667776 999999988765443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.10  E-value=0.00011  Score=75.62  Aligned_cols=81  Identities=26%  Similarity=0.345  Sum_probs=46.3

Q ss_pred             cCCCCCcEEEecCccccc---ccccccCCCCCcEEeccCcccCCc-ccc-cCCCCCCEEEccCCCCC--ccchhccCCCC
Q 038494          564 EGTEDLKVLSLSGIHFSS---LSSSLGHLINLQTLCLDWCQLEDV-AAI-GQLKKLEILSFRYSDIK--QLPLEIGQLAQ  636 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~---lp~~i~~l~~L~~L~l~~~~l~~l-~~i-~~L~~L~~L~l~~~~~~--~lp~~i~~L~~  636 (1209)
                      ...++++.|||.+|.|++   +-..+.+|++|++|+++.|++... .+. -.+.+|++|-+.++.+.  .....+..++.
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~  147 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPK  147 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchh
Confidence            345566666666666653   333344666666666666665443 333 35556666666666433  44444566666


Q ss_pred             CCEEeccC
Q 038494          637 LQLLDLSN  644 (1209)
Q Consensus       637 L~~L~l~~  644 (1209)
                      ++.|.++.
T Consensus       148 vtelHmS~  155 (418)
T KOG2982|consen  148 VTELHMSD  155 (418)
T ss_pred             hhhhhhcc
Confidence            66666665

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.07  E-value=0.0016  Score=64.95  Aligned_cols=103  Identities=15%  Similarity=0.230  Sum_probs=69.9

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      |....++||-++-++++.-...++..+-+.|.||+|+||||-+..+++..-...+-+.+.-.++|++..+.-+...|-. 
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~-  101 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKM-  101 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHH-
Confidence            3346688999988888887777888999999999999999999999988865444455666666665544333222211 


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +....              -.+-.++.-+||||.+++.
T Consensus       102 FAQ~k--------------v~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  102 FAQKK--------------VTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HHHhh--------------ccCCCCceeEEEeeccchh
Confidence            10000              0011256678999999876

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.06  E-value=0.031  Score=65.00  Aligned_cols=189  Identities=13%  Similarity=0.165  Sum_probs=118.5

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ..+++|-+.....|...+..++. ..-...|+-|+||||+|+-++........       ...+++..-..-+.|...-.
T Consensus        15 F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~-------~~~ePC~~C~~Ck~I~~g~~   87 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG-------PTAEPCGKCISCKEINEGSL   87 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC-------CCCCcchhhhhhHhhhcCCc
Confidence            56789999999999998876543 45568999999999999999988754321       11122222222233333211


Q ss_pred             CCCC--C--CCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEeccch
Q 038494          237 LNFD--L--NDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK  306 (1209)
Q Consensus       237 ~~~~--~--~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~  306 (1209)
                      .+..  +  .....+.++.+.+...    .++.=+.|+|+|.-.  ..|..+...+-.-.        ..-+.|+.|++.
T Consensus        88 ~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP--------~hV~FIlATTe~  159 (515)
T COG2812          88 IDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPP--------SHVKFILATTEP  159 (515)
T ss_pred             ccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCc--------cCeEEEEecCCc
Confidence            1110  0  1112556667777665    345568899999866  46777655544322        455666655554


Q ss_pred             -hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          307 -HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       307 -~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                       .+..+.......|.+..++.++-...+...+....- ....+...-|++..+|..-
T Consensus       160 ~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I-~~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         160 QKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGI-NIEEDALSLIARAAEGSLR  215 (515)
T ss_pred             CcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCC-ccCHHHHHHHHHHcCCChh
Confidence             455555677789999999999999888888753322 2234555566776666443

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.06  E-value=0.012  Score=67.31  Aligned_cols=133  Identities=17%  Similarity=0.269  Sum_probs=84.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ..-|.+||++|+|||-||++|++.....       |+++..+    +++.   ..+|       +.+..++.+..+-+..
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~N-------FisVKGP----ELlN---kYVG-------ESErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGAN-------FISVKGP----ELLN---KYVG-------ESERAVRQVFQRARAS  603 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCc-------eEeecCH----HHHH---HHhh-------hHHHHHHHHHHHhhcC
Confidence            3457899999999999999999998754       4555443    1221   1222       1156777788888778


Q ss_pred             CeEEEEEeCCCcccC-------------ccccCCCCCCCCccccccccCCcEEEEeccchhhhcccC----CcceEEEcC
Q 038494          260 KRVLIILDNIWKKLG-------------LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIE  322 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~-------------~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~  322 (1209)
                      .+++|.||.++...-             ...+.-.+...      ....|--||-.|...++...++    .-...+-++
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl------~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~  677 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGL------EERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVG  677 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhccc------ccccceEEEeecCCCcccchhhcCCCccCceeeec
Confidence            899999999986511             01111111110      1125666777777766654333    223566677


Q ss_pred             CCCHHHHHHHHHHHhCC
Q 038494          323 VLSKEEALQFFEKIVGN  339 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~~~  339 (1209)
                      .-+.+|-.++++....+
T Consensus       678 lPn~~eR~~ILK~~tkn  694 (802)
T KOG0733|consen  678 LPNAEERVAILKTITKN  694 (802)
T ss_pred             CCCHHHHHHHHHHHhcc
Confidence            77888999999988863

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.04  E-value=0.005  Score=68.19  Aligned_cols=103  Identities=19%  Similarity=0.206  Sum_probs=69.2

Q ss_pred             HHHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCE-EEEEEcCCC-cCHHHHHHHHHHHhCCCCCCCCCh
Q 038494          169 QDVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDK-VVMAEVTEN-PDVQKIQDKLASDLDLNFDLNDSK  245 (1209)
Q Consensus       169 ~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~~~~~  245 (1209)
                      .++++.+.. ++...+.|+|.+|+|||||++.+++..... +-+. ++|+.+.+. .++.++++.+...+.....+....
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            346776652 344577999999999999999999887653 3343 477777654 478888888888776544322221


Q ss_pred             -----HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 -----PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 -----~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                           ......+.+++. ++++.+||+|++...
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHH
Confidence                 112223344443 589999999999754

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.016  Score=67.35  Aligned_cols=161  Identities=14%  Similarity=0.236  Sum_probs=90.5

Q ss_pred             ccccccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      |...+.++=|-++.+.+|-+.+.-             ...+-|..+|++|+|||++|+.+++.....  |     +.+..
T Consensus       429 p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~n--F-----lsvkg  501 (693)
T KOG0730|consen  429 PNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMN--F-----LSVKG  501 (693)
T ss_pred             CCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCC--e-----eeccC
Confidence            444466666677776666655541             245678899999999999999999988754  3     33333


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccc--------c
Q 038494          221 NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRK--------Q  292 (1209)
Q Consensus       221 ~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~--------~  292 (1209)
                      +    +++.   ...|       +.+..++.+.+.-++-.+.+|.||.++....-+. ....   +...|.        .
T Consensus       502 p----EL~s---k~vG-------eSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~-g~~~---~v~~RVlsqLLtEmD  563 (693)
T KOG0730|consen  502 P----ELFS---KYVG-------ESERAIREVFRKARQVAPCIIFFDEIDALAGSRG-GSSS---GVTDRVLSQLLTEMD  563 (693)
T ss_pred             H----HHHH---HhcC-------chHHHHHHHHHHHhhcCCeEEehhhHHhHhhccC-CCcc---chHHHHHHHHHHHcc
Confidence            2    1111   1111       1155666677666666779999999886532111 0000   111110        1


Q ss_pred             cc--CCcEEEE-eccchhhh-cccCC---cceEEEcCCCCHHHHHHHHHHHhCC
Q 038494          293 DL--RRRTIIL-TSRSKHLL-TNDMN---SQKIFLIEVLSKEEALQFFEKIVGN  339 (1209)
Q Consensus       293 ~~--~~s~ilv-TtR~~~v~-~~~~~---~~~~~~l~~L~~~e~~~lf~~~~~~  339 (1209)
                      |.  ...-+|| .|-..+.. ...+.   -...+.++.-+.+.-.++|+.++..
T Consensus       564 G~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kk  617 (693)
T KOG0730|consen  564 GLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKK  617 (693)
T ss_pred             cccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhc
Confidence            11  1122333 33333322 21222   3456777766777778999988863

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.03  E-value=0.02  Score=71.48  Aligned_cols=166  Identities=17%  Similarity=0.166  Sum_probs=89.4

Q ss_pred             cchhhHHHHHHHHHHHHhC------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...+|.++.+++|++++..      ....++.++|++|+||||+|+.++......  |..   +.++...+..++...-.
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~--~~~---i~~~~~~d~~~i~g~~~  396 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRK--YVR---MALGGVRDEAEIRGHRR  396 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCC--EEE---EEcCCCCCHHHhccchh
Confidence            4578999999999988871      345689999999999999999999876532  322   33343333333221111


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc------cccCCCCCCCCccccc-------cccCCcEE
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL------EEIGIPFGDVDEKDRK-------QDLRRRTI  299 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~------~~l~~~~~~~~~~~~~-------~~~~~s~i  299 (1209)
                      ...+.    ..  ......+. .. ....-++++|.++....-      ..+...+.......+.       ....+.-+
T Consensus       397 ~~~g~----~~--G~~~~~l~-~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~  468 (784)
T PRK10787        397 TYIGS----MP--GKLIQKMA-KV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMF  468 (784)
T ss_pred             ccCCC----CC--cHHHHHHH-hc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEE
Confidence            11110    00  11111221 11 123447899999865311      1121111110000000       01134445


Q ss_pred             EEeccchhhhcccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          300 ILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       300 lvTtR~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      |.|+....+.........++.+.+++.+|-.++..++.
T Consensus       469 i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        469 VATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            55665444333233455789999999999888887765

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.03  E-value=0.0063  Score=71.33  Aligned_cols=179  Identities=16%  Similarity=0.157  Sum_probs=92.6

Q ss_pred             ccchhhHHHHHHHHHHHHh-------C---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR-------N---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~-------~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      ..++.|.+..++.+.+...       .   ...+-|.++|++|+|||.+|+.+++.....  |   +-++++.      +
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~--~---~~l~~~~------l  295 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP--L---LRLDVGK------L  295 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEEhHH------h
Confidence            4456677666655554221       1   224568899999999999999999987532  2   1222211      1


Q ss_pred             HHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccc--------cc-cCCcE
Q 038494          228 QDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRK--------QD-LRRRT  298 (1209)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~--------~~-~~~s~  298 (1209)
                      ...   ..|       ..+..++.+.+......+++|++|+++....-..   ...+.+...+.        .. ..+--
T Consensus       296 ~~~---~vG-------ese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~---~~~d~~~~~rvl~~lL~~l~~~~~~V~  362 (489)
T CHL00195        296 FGG---IVG-------ESESRMRQMIRIAEALSPCILWIDEIDKAFSNSE---SKGDSGTTNRVLATFITWLSEKKSPVF  362 (489)
T ss_pred             ccc---ccC-------hHHHHHHHHHHHHHhcCCcEEEehhhhhhhcccc---CCCCchHHHHHHHHHHHHHhcCCCceE
Confidence            100   000       1133445555544446789999999985411000   00000000000        00 12334


Q ss_pred             EEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          299 IILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       299 ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                      ||.||.........+    .-...+.++.-+.++-.++|..+................+++.+.|.
T Consensus       363 vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~Gf  428 (489)
T CHL00195        363 VVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKF  428 (489)
T ss_pred             EEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCC
Confidence            555666543221111    23457888888999999999888753221110011234666666554

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.02  E-value=0.012  Score=65.67  Aligned_cols=176  Identities=10%  Similarity=0.122  Sum_probs=100.8

Q ss_pred             HHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC-------CCC
Q 038494          168 FQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD-------LNF  239 (1209)
Q Consensus       168 ~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~-------~~~  239 (1209)
                      -+++...+..++ ...+.+.|+.|+||+++|..++...-.....+..   .++..    .--+.+...-.       ...
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~p~~   83 (334)
T PRK07993         11 YEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHK---SCGHC----RGCQLMQAGTHPDYYTLTPEK   83 (334)
T ss_pred             HHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC---CCCCC----HHHHHHHcCCCCCEEEEeccc
Confidence            456677776554 3577899999999999999999877432111000   00000    00000000000       000


Q ss_pred             CCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc-hhhhccc
Q 038494          240 DLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-KHLLTND  312 (1209)
Q Consensus       240 ~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-~~v~~~~  312 (1209)
                      ....-..++++.+.+.+.    .+++-++|+|+++...  ....+...+-.-.        .++.+|.+|.+ ..+..+.
T Consensus        84 ~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp--------~~t~fiL~t~~~~~lLpTI  155 (334)
T PRK07993         84 GKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPP--------ENTWFFLACREPARLLATL  155 (334)
T ss_pred             ccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCC--------CCeEEEEEECChhhChHHH
Confidence            001122566667776665    3567799999998763  3333333222222        45556666655 4454443


Q ss_pred             CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          313 MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       313 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .+....+.+.+++.+++.+.+....+      ...+.+..+++.++|.|...
T Consensus       156 rSRCq~~~~~~~~~~~~~~~L~~~~~------~~~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        156 RSRCRLHYLAPPPEQYALTWLSREVT------MSQDALLAALRLSAGAPGAA  201 (334)
T ss_pred             HhccccccCCCCCHHHHHHHHHHccC------CCHHHHHHHHHHcCCCHHHH
Confidence            45567889999999999988865421      11344678899999999644

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.01  E-value=0.0055  Score=62.32  Aligned_cols=174  Identities=14%  Similarity=0.189  Sum_probs=101.5

Q ss_pred             ccchhhHHHHHHH---HHHHHhCC------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHH
Q 038494          158 FEAFDSRMKLFQD---VVEALRND------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       158 ~~~~~gR~~~~~~---l~~~L~~~------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      ..+++|.++.+.+   |++.|.++      ..+-|..+|++|.|||-+|+++++..++-  |     +.+.    ..   
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vk----at---  185 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVK----AT---  185 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEec----hH---
Confidence            5678888766544   66677643      45788999999999999999999987752  2     1111    11   


Q ss_pred             HHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc---C-----------ccccCCCCCCCCcccccccc
Q 038494          229 DKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL---G-----------LEEIGIPFGDVDEKDRKQDL  294 (1209)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~---~-----------~~~l~~~~~~~~~~~~~~~~  294 (1209)
                      +-|-+.+|       +....+.+++.+-.+..++++.+|.++...   .           ..++.-.+..      ....
T Consensus       186 ~liGehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDg------i~en  252 (368)
T COG1223         186 ELIGEHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDG------IKEN  252 (368)
T ss_pred             HHHHHHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccC------cccC
Confidence            12222222       125667777777776789999999987551   1           1111111111      1112


Q ss_pred             CCcEEEEeccchhhhcccCC--cceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          295 RRRTIILTSRSKHLLTNDMN--SQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       295 ~~s~ilvTtR~~~v~~~~~~--~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                      .|-..|-.|.+.+....+..  -...++...-+++|-.+++...+..-.-+-  ..-.+.++++.+|+
T Consensus       253 eGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv--~~~~~~~~~~t~g~  318 (368)
T COG1223         253 EGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV--DADLRYLAAKTKGM  318 (368)
T ss_pred             CceEEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcc--ccCHHHHHHHhCCC
Confidence            46666666666554432221  224567777788888888888774221111  11144566666554

>PRK08116 hypothetical protein; Validated

Probab=97.00  E-value=0.002  Score=69.80  Aligned_cols=103  Identities=17%  Similarity=0.188  Sum_probs=60.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.++|.+|+|||.||..+++....+  -..++++++      .+++..+........      ......+.+.+.+ -
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~~------~~ll~~i~~~~~~~~------~~~~~~~~~~l~~-~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVNF------PQLLNRIKSTYKSSG------KEDENEIIRSLVN-A  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEH------HHHHHHHHHHHhccc------cccHHHHHHHhcC-C
Confidence            458899999999999999999998754  335666653      345555554443211      1122334555542 3


Q ss_pred             eEEEEEeCCCcc--cCccc--cCCCCCCCCccccccccCCcEEEEeccch
Q 038494          261 RVLIILDNIWKK--LGLEE--IGIPFGDVDEKDRKQDLRRRTIILTSRSK  306 (1209)
Q Consensus       261 ~~LlvlDdv~~~--~~~~~--l~~~~~~~~~~~~~~~~~~s~ilvTtR~~  306 (1209)
                       =|||+||+...  ..|..  +...+....       ..+..+||||...
T Consensus       180 -dlLviDDlg~e~~t~~~~~~l~~iin~r~-------~~~~~~IiTsN~~  221 (268)
T PRK08116        180 -DLLILDDLGAERDTEWAREKVYNIIDSRY-------RKGLPTIVTTNLS  221 (268)
T ss_pred             -CEEEEecccCCCCCHHHHHHHHHHHHHHH-------HCCCCEEEECCCC
Confidence             38999999543  33322  211111100       1456688888754

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.00  E-value=0.003  Score=62.74  Aligned_cols=133  Identities=15%  Similarity=0.239  Sum_probs=75.4

Q ss_pred             hHHHHHHHHHHHHhCCCce-EEEEEcCCCChHHHHHHHHHHHHhhccc------------------CCEEEEEEcCCC--
Q 038494          163 SRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIAKQVMEDKV------------------FDKVVMAEVTEN--  221 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~~~~~~~~~~~------------------f~~~~wv~~s~~--  221 (1209)
                      |-++..+.|.+.+..++.+ .+.++|..|+||+++|..+++..-....                  ...+.|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            4566777888888776654 6799999999999999999987643222                  122334433322  


Q ss_pred             -cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCcccccccc
Q 038494          222 -PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDL  294 (1209)
Q Consensus       222 -~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~  294 (1209)
                       ..+                      +.++.+.+.+.    .+++-++|+||++..  +....+...+-...        
T Consensus        81 ~i~i----------------------~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp--------  130 (162)
T PF13177_consen   81 SIKI----------------------DQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPP--------  130 (162)
T ss_dssp             SBSH----------------------HHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTT--------
T ss_pred             hhhH----------------------HHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCC--------
Confidence             223                      33334444332    235678999999976  34444433222222        


Q ss_pred             CCcEEEEeccchh-hhcccCCcceEEEcCCCC
Q 038494          295 RRRTIILTSRSKH-LLTNDMNSQKIFLIEVLS  325 (1209)
Q Consensus       295 ~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~  325 (1209)
                      .++++|++|++.. +..........+.+.+++
T Consensus       131 ~~~~fiL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  131 ENTYFILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             TTEEEEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             CCEEEEEEECChHHChHHHHhhceEEecCCCC
Confidence            5778888887764 333334556677776654

...

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.98  E-value=0.0022  Score=62.58  Aligned_cols=90  Identities=22%  Similarity=0.134  Sum_probs=53.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.|+|++|+||||+|+.++.......  ..++++..+...........  ...................+.......+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            5789999999999999999998876532  34566665544322222111  1111111111222344445555554333


Q ss_pred             eEEEEEeCCCcccC
Q 038494          261 RVLIILDNIWKKLG  274 (1209)
Q Consensus       261 ~~LlvlDdv~~~~~  274 (1209)
                      ..+|++|+++....
T Consensus        79 ~~viiiDei~~~~~   92 (148)
T smart00382       79 PDVLILDEITSLLD   92 (148)
T ss_pred             CCEEEEECCcccCC
Confidence            49999999988743

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=96.97  E-value=0.044  Score=61.47  Aligned_cols=203  Identities=18%  Similarity=0.215  Sum_probs=123.3

Q ss_pred             HHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHH-HHHHHHHhhcccCCEEEEEEcCCC---cCHHHHHHHHHHHhCCC-
Q 038494          164 RMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLV-KQIAKQVMEDKVFDKVVMAEVTEN---PDVQKIQDKLASDLDLN-  238 (1209)
Q Consensus       164 R~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa-~~~~~~~~~~~~f~~~~wv~~s~~---~~~~~l~~~i~~~l~~~-  238 (1209)
                      |.+.+++|..||.+..-.+|.|.|+-|.||+.|+ .++.++.+.      +..+++.+-   .+-..+++.++.++|.- 
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~qvGY~P   74 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLASQVGYFP   74 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHHhcCCCc
Confidence            5677899999999887889999999999999999 676655332      556665422   22334444444444321 


Q ss_pred             ----------------------C-CCCCChHHHHHHHHHH---------------------------Hh--cCCeEEEEE
Q 038494          239 ----------------------F-DLNDSKPHRAKQLCQR---------------------------LT--KEKRVLIIL  266 (1209)
Q Consensus       239 ----------------------~-~~~~~~~~~~~~l~~~---------------------------l~--~~k~~Llvl  266 (1209)
                                            . .-....+.++..+...                           +.  ..++=+||+
T Consensus        75 vFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVI  154 (431)
T PF10443_consen   75 VFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVI  154 (431)
T ss_pred             chHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEE
Confidence                                  1 1111223333222111                           00  122568999


Q ss_pred             eCCCccc-----------CccccCCCCCCCCccccccccCCcEEEEeccchhhhc---ccC--CcceEEEcCCCCHHHHH
Q 038494          267 DNIWKKL-----------GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLT---NDM--NSQKIFLIEVLSKEEAL  330 (1209)
Q Consensus       267 Ddv~~~~-----------~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~---~~~--~~~~~~~l~~L~~~e~~  330 (1209)
                      ||+....           +|...   +.         ..+-.+||++|-+.....   ..+  ...+.+.|.-.+.+.|.
T Consensus       155 dnF~~k~~~~~~iy~~laeWAa~---Lv---------~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak  222 (431)
T PF10443_consen  155 DNFLHKAEENDFIYDKLAEWAAS---LV---------QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAK  222 (431)
T ss_pred             cchhccCcccchHHHHHHHHHHH---HH---------hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHH
Confidence            9986431           23322   11         114557888887754332   122  34468889999999999


Q ss_pred             HHHHHHhCCCCCC-------------------CcchHHHHHHHHHhCCChhHHHHHHHHHhcC-Ch-hHHHHHHH
Q 038494          331 QFFEKIVGNSAKA-------------------SAFQPLADEIVGKCGGLPVALSTVANALKNK-KL-PVWKDALT  384 (1209)
Q Consensus       331 ~lf~~~~~~~~~~-------------------~~~~~~~~~i~~~~~glPLai~~~~~~l~~~-~~-~~w~~~~~  384 (1209)
                      .+...+.......                   .....-....++..||=-.-+..+++.++.. ++ +..+++.+
T Consensus       223 ~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~  297 (431)
T PF10443_consen  223 QYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIIS  297 (431)
T ss_pred             HHHHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            9999988632110                   1244456688899999999999999999843 33 33344443

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

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

Probab=96.97  E-value=0.0014  Score=64.28  Aligned_cols=101  Identities=21%  Similarity=0.283  Sum_probs=69.5

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccC-CCCCcEEeccCcccCCc---ccccCCCCCCE
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH-LINLQTLCLDWCQLEDV---AAIGQLKKLEI  616 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~-l~~L~~L~l~~~~l~~l---~~i~~L~~L~~  616 (1209)
                      .+...+++.+|.  +..++.  |..++.|..|.|.+|.|+.+-+.+.. +++|..|.+.+|++..+   ..+..++.|++
T Consensus        42 d~~d~iDLtdNd--l~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   42 DQFDAIDLTDND--LRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             cccceecccccc--hhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            345566666653  333322  56777888888888888877555554 45688888888887665   56677788888


Q ss_pred             EEccCCCCCccch----hccCCCCCCEEeccCC
Q 038494          617 LSFRYSDIKQLPL----EIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       617 L~l~~~~~~~lp~----~i~~L~~L~~L~l~~~  645 (1209)
                      |.+-+|.++.-+.    .+.++++|++||....
T Consensus       118 Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  118 LTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            8888887765443    3678888888888763

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

Probab=96.96  E-value=0.00027  Score=82.75  Aligned_cols=106  Identities=27%  Similarity=0.404  Sum_probs=79.2

Q ss_pred             hcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEec
Q 038494          563 FEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDL  642 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l  642 (1209)
                      +..++.|..|++.+|.|..+...+..+.+|++|++++|.|+.+.++..+..|+.|++++|.+..++ ++..++.|+.+++
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i~~~~-~~~~l~~L~~l~l  169 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLISDIS-GLESLKSLKLLDL  169 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhheeccCcchhcc-CCccchhhhcccC
Confidence            366788888888888888776667788888888888888888888888888888888888887664 4556788888888


Q ss_pred             cCCCCCcccCc-hhhcCCCCCcEEECCCCC
Q 038494          643 SNCSSLVVIAP-NVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       643 ~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~  671 (1209)
                      ++ +.+..+.. . +..+.+|+.+.++++.
T Consensus       170 ~~-n~i~~ie~~~-~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  170 SY-NRIVDIENDE-LSELISLEELDLGGNS  197 (414)
T ss_pred             Cc-chhhhhhhhh-hhhccchHHHhccCCc
Confidence            87 45555543 1 3566777777776653

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.025  Score=66.13  Aligned_cols=99  Identities=24%  Similarity=0.298  Sum_probs=65.0

Q ss_pred             cchhhHHHHHHHHHHHHh------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALR------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ++-+|.++.+++|++++.      +-+.+++..+|++|+|||.+|+.++....-+  |   +-++++.-.|..++-..=-
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--F---fRfSvGG~tDvAeIkGHRR  485 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--F---FRFSVGGMTDVAEIKGHRR  485 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--e---EEEeccccccHHhhcccce
Confidence            456799999999999987      3356899999999999999999999887643  3   2345666555555422111


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      ..+|          ..-.++.+.|+  +...=|+.+|.|+..
T Consensus       486 TYVG----------AMPGkiIq~LK~v~t~NPliLiDEvDKl  517 (906)
T KOG2004|consen  486 TYVG----------AMPGKIIQCLKKVKTENPLILIDEVDKL  517 (906)
T ss_pred             eeec----------cCChHHHHHHHhhCCCCceEEeehhhhh
Confidence            1111          01122333343  245678999999865

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

Probab=96.91  E-value=0.0018  Score=63.58  Aligned_cols=102  Identities=21%  Similarity=0.304  Sum_probs=70.6

Q ss_pred             CCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccC-CCCCCEEEccCCCCCccch--hccCCCCCCEEe
Q 038494          566 TEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQ-LKKLEILSFRYSDIKQLPL--EIGQLAQLQLLD  641 (1209)
Q Consensus       566 l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~-L~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~  641 (1209)
                      +...-.+||++|.+..++. +..+..|.+|.+.+|.|..+ +.+.. +++|+.|.+.+|++..+..  .+..+++|++|.
T Consensus        41 ~d~~d~iDLtdNdl~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLT  119 (233)
T ss_pred             ccccceecccccchhhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceee
Confidence            3456778888888877654 67788888888888888888 55544 5568888888887775532  355677888887


Q ss_pred             ccCCCCCcccC---chhhcCCCCCcEEECCC
Q 038494          642 LSNCSSLVVIA---PNVISKFSRLEELYMGD  669 (1209)
Q Consensus       642 l~~~~~l~~~~---~~~l~~L~~L~~L~l~~  669 (1209)
                      +-+ +......   ...+.++++|++|++..
T Consensus       120 ll~-Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  120 LLG-NPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             ecC-CchhcccCceeEEEEecCcceEeehhh
Confidence            766 3333222   23467788888888754

>PHA00729 NTP-binding motif containing protein

Probab=96.88  E-value=0.0053  Score=63.23  Aligned_cols=36  Identities=31%  Similarity=0.463  Sum_probs=28.8

Q ss_pred             HHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          170 DVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       170 ~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+++.+...+...|.|+|.+|+||||||..+++...
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345555555667899999999999999999998753

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.018  Score=67.87  Aligned_cols=98  Identities=14%  Similarity=0.220  Sum_probs=71.0

Q ss_pred             ccccccchhhHHHHHHHHHHHHhC------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALRN------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      |.-.+.++=|-++.+.+|.+-+.-            .+..-|.++|++|.|||-+|++|+.+....       |++|-.+
T Consensus       667 PnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~-------FlSVKGP  739 (953)
T KOG0736|consen  667 PNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN-------FLSVKGP  739 (953)
T ss_pred             CccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee-------EEeecCH
Confidence            444467777888889999887751            124568899999999999999999987653       4555443


Q ss_pred             cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          222 PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       222 ~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                          +++.   ..+|.       .++-++++.++-++-++++|.||.+++.
T Consensus       740 ----ELLN---MYVGq-------SE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ----ELLN---MYVGQ-------SEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             ----HHHH---HHhcc-------hHHHHHHHHHHhhccCCeEEEecccccc
Confidence                1211   11221       1667788888888789999999999876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.87  E-value=0.012  Score=74.30  Aligned_cols=176  Identities=15%  Similarity=0.212  Sum_probs=99.6

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ....+.|.+..++.|.+.+.-             ...+-|.++|++|+|||++|+.+++.....  |     +.+..   
T Consensus       451 ~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~--f-----i~v~~---  520 (733)
T TIGR01243       451 RWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN--F-----IAVRG---  520 (733)
T ss_pred             chhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E-----EEEeh---
Confidence            355677888777777766541             123458899999999999999999986532  2     22221   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc--------------cccCCCCCCCCccc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL--------------EEIGIPFGDVDEKD  289 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~--------------~~l~~~~~~~~~~~  289 (1209)
                       .+++.   +.++       ..+..++.+........+.+|++|+++....-              ..+...+...    
T Consensus       521 -~~l~~---~~vG-------ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~----  585 (733)
T TIGR01243       521 -PEILS---KWVG-------ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGI----  585 (733)
T ss_pred             -HHHhh---cccC-------cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcc----
Confidence             11111   0111       11445566666665567899999999764210              0010000000    


Q ss_pred             cccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          290 RKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       290 ~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                        ....+.-||.||...+......    .-...+.++..+.++-.++|+.+.......++  .....+++.+.|.-
T Consensus       586 --~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~--~~l~~la~~t~g~s  657 (733)
T TIGR01243       586 --QELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAED--VDLEELAEMTEGYT  657 (733)
T ss_pred             --cCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCcc--CCHHHHHHHcCCCC
Confidence              0113444666776554332222    23467889989999999999877653222111  11346777777754

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.86  E-value=0.014  Score=73.33  Aligned_cols=102  Identities=18%  Similarity=0.216  Sum_probs=60.4

Q ss_pred             chhhHHHHHHHHHHHHhC-------C--CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN-------D--KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.+..++.+.+.+..       .  ...++.++|++|+|||++|+.+++...     ...+.+++++-.+...    
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~-----~~~~~~d~se~~~~~~----  525 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG-----VHLERFDMSEYMEKHT----  525 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc-----CCeEEEeCchhhhccc----
Confidence            466888888888887762       1  234678999999999999999998763     2345566554222111    


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.+.++.+.....  .+....+.+.+.....-+|+||+++..
T Consensus       526 ~~~lig~~~gyvg--~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       526 VSRLIGAPPGYVG--FEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             HHHHhcCCCCCcc--cchhhHHHHHHHhCCCeEEEEechhhc
Confidence            1122222211110  112223444444445579999999876

>PRK08118 topology modulation protein; Reviewed

Probab=96.86  E-value=0.00065  Score=67.88  Aligned_cols=36  Identities=28%  Similarity=0.428  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc-ccCCEEEEE
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED-KVFDKVVMA  216 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv  216 (1209)
                      +.|.|+|++|+||||+|+.+++..... -+|+.++|-
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            358999999999999999999988654 457777763

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.83  E-value=0.02  Score=63.84  Aligned_cols=105  Identities=15%  Similarity=0.190  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc-hhhhcccCCcceE
Q 038494          246 PHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-KHLLTNDMNSQKI  318 (1209)
Q Consensus       246 ~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-~~v~~~~~~~~~~  318 (1209)
                      .++++.+.+.+.    .+++-++|+|+++...  .+..+...+-.-.        +++.+|++|.+ ..+..+.......
T Consensus       114 idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp--------~~t~fiL~t~~~~~LLpTI~SRcq~  185 (342)
T PRK06964        114 IEQVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEEPP--------PGTVFLLVSARIDRLLPTILSRCRQ  185 (342)
T ss_pred             HHHHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcCCC--------cCcEEEEEECChhhCcHHHHhcCEE
Confidence            566677777664    2456689999998763  4444433332222        45555555544 5554444456689


Q ss_pred             EEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          319 FLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       319 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      +.+.+++.++..+.+....   .  ++    ...++..++|.|+....+
T Consensus       186 i~~~~~~~~~~~~~L~~~~---~--~~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        186 FPMTVPAPEAAAAWLAAQG---V--AD----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             EEecCCCHHHHHHHHHHcC---C--Ch----HHHHHHHcCCCHHHHHHH
Confidence            9999999999999987751   1  11    224578889999755433

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.032  Score=64.00  Aligned_cols=94  Identities=17%  Similarity=0.287  Sum_probs=66.2

Q ss_pred             ccchhhHHHHHHHHHHHHh---C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ...+=|-++.+.++.+.+.   .         ...+-|.++|++|+|||.||+.++.+..+-       ++.++-+    
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-------f~~isAp----  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-------FLSISAP----  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-------eEeecch----
Confidence            4456688888888777765   1         124568899999999999999999988753       2333322    


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                          +|.....      .+.++.++++.+.-.+..++++++|+++..
T Consensus       258 ----eivSGvS------GESEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  258 ----EIVSGVS------GESEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             ----hhhcccC------cccHHHHHHHHHHHhccCCeEEEeeccccc
Confidence                1222221      122677888888888789999999999865

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.78  E-value=0.011  Score=69.43  Aligned_cols=163  Identities=17%  Similarity=0.176  Sum_probs=92.1

Q ss_pred             chhhHHHHHHHHHHHHh------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      +-+|-++.+++|++.|.      .-+.++++++|++|+|||+|++.+++...-+  |-   -++++.-.|..++...=-.
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--fv---R~sLGGvrDEAEIRGHRRT  398 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--FV---RISLGGVRDEAEIRGHRRT  398 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--EE---EEecCccccHHHhcccccc
Confidence            45699999999999887      2345799999999999999999999988643  42   2344444444433211111


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHh--cCCeEEEEEeCCCcccC-c-----cccCCCCCCCCccccc-----cccCCcEEE
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLT--KEKRVLIILDNIWKKLG-L-----EEIGIPFGDVDEKDRK-----QDLRRRTII  300 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~--~~k~~LlvlDdv~~~~~-~-----~~l~~~~~~~~~~~~~-----~~~~~s~il  300 (1209)
                      .+|.          .-.++.+.+.  +.+.=+++||.++.... +     .++...+.+.....|.     ..-.=|+|+
T Consensus       399 YIGa----------mPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         399 YIGA----------MPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             cccc----------CChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence            1110          1112333333  24677999999986521 1     1111111110000000     000123343


Q ss_pred             -Eeccc-hh-hhcccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          301 -LTSRS-KH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       301 -vTtR~-~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                       |||-+ -+ +..-.+....++++.+.+++|-.++-+++.
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence             34433 22 322234667899999999999988888775

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.72  E-value=0.047  Score=64.05  Aligned_cols=168  Identities=15%  Similarity=0.162  Sum_probs=105.1

Q ss_pred             chhhHHHHHHHHHHHHh----C-CCceEEEEEcCCCChHHHHHHHHHHHHhh------cccCCEEEEEEcCCCcCHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR----N-DKLNIIGVHGMGGVGKTTLVKQIAKQVME------DKVFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~----~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~------~~~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      .+-+|+.+..+|-+++.    + .....+-|.|.+|.|||..+..|.+....      -..|+. +.|+.-.-..+.+++
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~l~~~~~~Y  475 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLRLASPREIY  475 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEcceeecCHHHHH
Confidence            44589999999988876    3 34458899999999999999999986541      123443 345555556789999


Q ss_pred             HHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcccC--ccccCCCCCCCCccccccccCCcEEEEe
Q 038494          229 DKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKLG--LEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~~--~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      ..|...+.+.....   ...+..+..++.    ..+.++|++|+++..-.  -+-+...|.+..       .++||++|.
T Consensus       476 ~~I~~~lsg~~~~~---~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt-------~~~sKLvvi  545 (767)
T KOG1514|consen  476 EKIWEALSGERVTW---DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPT-------LKNSKLVVI  545 (767)
T ss_pred             HHHHHhcccCcccH---HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCc-------CCCCceEEE
Confidence            99999987654332   334455555554    23568999999876521  111111222211       167777664


Q ss_pred             cc-ch-hhhcccC-------CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          303 SR-SK-HLLTNDM-------NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       303 tR-~~-~v~~~~~-------~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      += +- +.....+       -....+..+|.+.++-.++...+..
T Consensus       546 ~IaNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~  590 (767)
T KOG1514|consen  546 AIANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLK  590 (767)
T ss_pred             EecccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhc
Confidence            42 11 1111001       1235677888888888888777765

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.66  E-value=0.023  Score=61.64  Aligned_cols=57  Identities=18%  Similarity=0.289  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          166 KLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       166 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      +.++++..++..+  ..|.+.|.+|+|||++|+.+++...     ...+++++....+..+++.
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dllg   65 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDLVG   65 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHHhh
Confidence            3445555555443  3567999999999999999987432     1245566666555555543

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.58  E-value=0.001  Score=68.74  Aligned_cols=66  Identities=18%  Similarity=0.178  Sum_probs=33.1

Q ss_pred             ccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCcc
Q 038494          788 FPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLK  860 (1209)
Q Consensus       788 l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~  860 (1209)
                      ||++..+.+..|+-- ...   .......||.+-.|.+.. +++.+|...  -....||.|..|.+++.|-+.
T Consensus       198 Fpnv~sv~v~e~PlK-~~s---~ek~se~~p~~~~LnL~~-~~idswasv--D~Ln~f~~l~dlRv~~~Pl~d  263 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLK-TES---SEKGSEPFPSLSCLNLGA-NNIDSWASV--DALNGFPQLVDLRVSENPLSD  263 (418)
T ss_pred             cccchheeeecCccc-chh---hcccCCCCCcchhhhhcc-cccccHHHH--HHHcCCchhheeeccCCcccc
Confidence            555555555555421 110   111223456666666655 555555432  122447777777777765444

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.045  Score=55.35  Aligned_cols=155  Identities=14%  Similarity=0.170  Sum_probs=90.2

Q ss_pred             chhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHH
Q 038494          160 AFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~  226 (1209)
                      .+-|-++.+++|.+.+.-             .+.+-+.++|++|.|||-||+.||+.-.       +.|+.+|...   -
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~-------c~firvsgse---l  217 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTD-------CTFIRVSGSE---L  217 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcc-------eEEEEechHH---H
Confidence            334567777777776651             2346688999999999999999987644       4567777642   1


Q ss_pred             HHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc--c-----------ccc
Q 038494          227 IQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD--R-----------KQD  293 (1209)
Q Consensus       227 l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~--~-----------~~~  293 (1209)
                      +++-|-+.           ....+++.---+...+.+|..|.+++...-.--   -..+++++  |           ...
T Consensus       218 vqk~igeg-----------srmvrelfvmarehapsiifmdeidsigs~r~e---~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  218 VQKYIGEG-----------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVE---SGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             HHHHhhhh-----------HHHHHHHHHHHHhcCCceEeeeccccccccccc---CCCCccHHHHHHHHHHHHhcccccc
Confidence            22222110           334444444444456788999988765211000   00011110  0           012


Q ss_pred             cCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          294 LRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      ..+-+||+.|..-++...+.    .....++.++-+++.-.++++-+..
T Consensus       284 tknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  284 TKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             ccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhh
Confidence            25778999887766543222    2345678888887777777776653

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.56  E-value=0.01  Score=62.30  Aligned_cols=88  Identities=16%  Similarity=0.166  Sum_probs=54.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh-CC---C--CCCCCC---hHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL-DL---N--FDLNDS---KPHRAK  250 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l-~~---~--~~~~~~---~~~~~~  250 (1209)
                      ..++.|+|.+|+|||++|.+++......  -..++|++... ++..++.+.. +.. ..   .  ......   ....+.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~~~-~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQIA-EDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHHHH-HhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            5789999999999999999998877543  46889999976 6666554432 221 00   0  000011   112244


Q ss_pred             HHHHHHhcCCeEEEEEeCCCc
Q 038494          251 QLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       251 ~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      .+.+.+.+.+.-+||+|.+..
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~  108 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTA  108 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHH
Confidence            444444444566889998754

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.56  E-value=0.013  Score=74.07  Aligned_cols=106  Identities=15%  Similarity=0.206  Sum_probs=60.8

Q ss_pred             cchhhHHHHHHHHHHHHhC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..++.+.+.+..         ....++.++|++|+|||.+|+.+++.....  ....+-++++.-.+..    
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~--~~~~~~~dmse~~~~~----  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG--EQNLITINMSEFQEAH----  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC--CcceEEEeHHHhhhhh----
Confidence            4578999999999988751         123478999999999999999998876422  1222333333211111    


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+.+-+|.+.....  ......+.+.+.+...-+|+||+++..
T Consensus       640 ~~~~l~g~~~gyvg--~~~~g~L~~~v~~~p~svvllDEieka  680 (852)
T TIGR03345       640 TVSRLKGSPPGYVG--YGEGGVLTEAVRRKPYSVVLLDEVEKA  680 (852)
T ss_pred             hhccccCCCCCccc--ccccchHHHHHHhCCCcEEEEechhhc
Confidence            11111222111110  011112344454456689999999865

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.55  E-value=0.0061  Score=63.61  Aligned_cols=37  Identities=27%  Similarity=0.392  Sum_probs=30.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT  219 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s  219 (1209)
                      -.++|+|.+|.||||++..+.....  ..|..+++++-.
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~~   50 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITPE   50 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEecC
Confidence            3678999999999999999998766  448888887553

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.55  E-value=0.027  Score=71.03  Aligned_cols=177  Identities=16%  Similarity=0.189  Sum_probs=97.0

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ...++.|.++.++.+.+++.-             ...+.|.++|++|+|||++|+.+++.....  |   +.++.+    
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~--~---i~i~~~----  246 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY--F---ISINGP----  246 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe--E---EEEecH----
Confidence            355688999999998887641             123568899999999999999999876421  2   222221    


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-------------cccCCCCCCCCcccc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-------------EEIGIPFGDVDEKDR  290 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-------------~~l~~~~~~~~~~~~  290 (1209)
                        ++.    ...      .......+..+.+......+.+|++|+++....-             ..+...+....    
T Consensus       247 --~i~----~~~------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~----  310 (733)
T TIGR01243       247 --EIM----SKY------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLK----  310 (733)
T ss_pred             --HHh----ccc------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccc----
Confidence              111    000      0011333444555554456789999998754210             01111010000    


Q ss_pred             ccccCCcEEEE-eccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          291 KQDLRRRTIIL-TSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       291 ~~~~~~s~ilv-TtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                         ..+..++| ||....-.....    .-...+.+...+.++-.+++..+........  ......+++.+.|.--+
T Consensus       311 ---~~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~--d~~l~~la~~t~G~~ga  383 (733)
T TIGR01243       311 ---GRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE--DVDLDKLAEVTHGFVGA  383 (733)
T ss_pred             ---cCCCEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc--ccCHHHHHHhCCCCCHH
Confidence               12333444 444332111111    1235677888888888888886654222111  12345788888886543

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.51  E-value=0.016  Score=59.51  Aligned_cols=88  Identities=20%  Similarity=0.281  Sum_probs=57.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQRL  256 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~~l  256 (1209)
                      ++|.++|+.|+||||.+..++.....+  -..+..++... .....+-++..++.++.+...   ..+..+......+..
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHH
Confidence            689999999999999999999888754  34667777643 335667778889998876422   223344444445555


Q ss_pred             hcCCeEEEEEeCCC
Q 038494          257 TKEKRVLIILDNIW  270 (1209)
Q Consensus       257 ~~~k~~LlvlDdv~  270 (1209)
                      ...+.=+|++|-.-
T Consensus        80 ~~~~~D~vlIDT~G   93 (196)
T PF00448_consen   80 RKKGYDLVLIDTAG   93 (196)
T ss_dssp             HHTTSSEEEEEE-S
T ss_pred             hhcCCCEEEEecCC
Confidence            43334577777653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.094  Score=59.20  Aligned_cols=152  Identities=21%  Similarity=0.304  Sum_probs=86.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh--
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT--  257 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~--  257 (1209)
                      ...+.+.|++|.|||+||..++....    |..+--++..+-.             |...      ......+.+.+.  
T Consensus       538 lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiSpe~mi-------------G~sE------saKc~~i~k~F~DA  594 (744)
T KOG0741|consen  538 LVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIISPEDMI-------------GLSE------SAKCAHIKKIFEDA  594 (744)
T ss_pred             ceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeChHHcc-------------CccH------HHHHHHHHHHHHHh
Confidence            45677899999999999999987654    6654433321111             1100      122223333332  


Q ss_pred             -cCCeEEEEEeCCCcccCccccCCCCCCCCcccc-----ccccCCcEEEE--eccchhhhcccCC----cceEEEcCCCC
Q 038494          258 -KEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR-----KQDLRRRTIIL--TSRSKHLLTNDMN----SQKIFLIEVLS  325 (1209)
Q Consensus       258 -~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~-----~~~~~~s~ilv--TtR~~~v~~~~~~----~~~~~~l~~L~  325 (1209)
                       +.+--.||+||++..-+|-.+++.+...-....     .+...|-|.+|  ||....+.. .|+    -...|.++.++
T Consensus       595 YkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~-~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  595 YKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQ-EMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             hcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHH-HcCHHHhhhheeecCccC
Confidence             245579999999999888877665421110000     01224445444  555555554 233    23578899997


Q ss_pred             H-HHHHHHHHHHhCCCCCCCcchHHHHHHHHHh
Q 038494          326 K-EEALQFFEKIVGNSAKASAFQPLADEIVGKC  357 (1209)
Q Consensus       326 ~-~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~  357 (1209)
                      . ++..+.+...-  ...+.+.+.++.+...+|
T Consensus       674 ~~~~~~~vl~~~n--~fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  674 TGEQLLEVLEELN--IFSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             chHHHHHHHHHcc--CCCcchhHHHHHHHhccc
Confidence            6 77777776642  122334455666666666

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.49  E-value=0.019  Score=65.15  Aligned_cols=143  Identities=15%  Similarity=0.118  Sum_probs=82.9

Q ss_pred             hhhHHHHHHHHHHHHh-CCCceE-EEEEcCCCChHHHHHHHHHHHHhhcc-------------------cCCEEEEEEcC
Q 038494          161 FDSRMKLFQDVVEALR-NDKLNI-IGVHGMGGVGKTTLVKQIAKQVMEDK-------------------VFDKVVMAEVT  219 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~-~~~~~v-i~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~~wv~~s  219 (1209)
                      ++|-+....++..+.. .++.+. +.++|++|+||||+|..+++......                   ....+..+..+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            4566777778888877 344444 99999999999999999999886432                   12334445444


Q ss_pred             CCcC---HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCcccccccc
Q 038494          220 ENPD---VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDL  294 (1209)
Q Consensus       220 ~~~~---~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~  294 (1209)
                      +...   ..+..+.+.+.......                 .++.-++++|+++...  .-..+....-...        
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~-----------------~~~~kviiidead~mt~~A~nallk~lEep~--------  137 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPL-----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPP--------  137 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCC-----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCC--------
Confidence            4433   23333333333322111                 2467899999998763  2222222222222        


Q ss_pred             CCcEEEEeccch-hhhcccCCcceEEEcCCCCHHH
Q 038494          295 RRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEE  328 (1209)
Q Consensus       295 ~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e  328 (1209)
                      ..+.+|++|... .+..........+++.+.+..+
T Consensus       138 ~~~~~il~~n~~~~il~tI~SRc~~i~f~~~~~~~  172 (325)
T COG0470         138 KNTRFILITNDPSKILPTIRSRCQRIRFKPPSRLE  172 (325)
T ss_pred             CCeEEEEEcCChhhccchhhhcceeeecCCchHHH
Confidence            567777777743 3333233455677777744433

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.48  E-value=0.0065  Score=65.26  Aligned_cols=136  Identities=21%  Similarity=0.324  Sum_probs=78.1

Q ss_pred             chhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHH-HHHhhcccCCEEE-E---EEcC---------CCcCHH
Q 038494          160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIA-KQVMEDKVFDKVV-M---AEVT---------ENPDVQ  225 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~-~~~~~~~~f~~~~-w---v~~s---------~~~~~~  225 (1209)
                      ++-+|..+..--+++|.+++...|.+.|.+|.|||.||.+.. +...++..|..++ .   +.++         ++..+.
T Consensus       225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeKm~  304 (436)
T COG1875         225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEKMG  304 (436)
T ss_pred             ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhhcc
Confidence            345677787888889999999999999999999999988776 3333444565433 1   1222         222344


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHH----------HHHhcC---CeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLC----------QRLTKE---KRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~----------~~l~~~---k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      -....|...+..-..........+..+.          .+++ +   ..-+||+|.+.+..  +...+....+       
T Consensus       305 PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IR-GRSl~~~FiIIDEaQNLTpheikTiltR~G-------  376 (436)
T COG1875         305 PWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIR-GRSLPDSFIIIDEAQNLTPHELKTILTRAG-------  376 (436)
T ss_pred             chHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeec-ccccccceEEEehhhccCHHHHHHHHHhcc-------
Confidence            4555555444221111111122222221          1111 2   24689999998873  3344432222       


Q ss_pred             ccccCCcEEEEeccchh
Q 038494          291 KQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~  307 (1209)
                          .|+||+.|---.+
T Consensus       377 ----~GsKIVl~gd~aQ  389 (436)
T COG1875         377 ----EGSKIVLTGDPAQ  389 (436)
T ss_pred             ----CCCEEEEcCCHHH
Confidence                7999888765443

>PRK12377 putative replication protein; Provisional

Probab=96.44  E-value=0.016  Score=61.60  Aligned_cols=75  Identities=23%  Similarity=0.339  Sum_probs=49.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ...+.++|.+|+|||+||..+++....+  ...++++++.      +++..+-.....    .    .....+.+.+.  
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~~------~l~~~l~~~~~~----~----~~~~~~l~~l~--  162 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTVP------DVMSRLHESYDN----G----QSGEKFLQELC--  162 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEHH------HHHHHHHHHHhc----c----chHHHHHHHhc--
Confidence            4678999999999999999999998754  3345666653      344444443321    0    11223455553  


Q ss_pred             CeEEEEEeCCCcc
Q 038494          260 KRVLIILDNIWKK  272 (1209)
Q Consensus       260 k~~LlvlDdv~~~  272 (1209)
                      +--|||+||+...
T Consensus       163 ~~dLLiIDDlg~~  175 (248)
T PRK12377        163 KVDLLVLDEIGIQ  175 (248)
T ss_pred             CCCEEEEcCCCCC
Confidence            5679999999544

>PRK07261 topology modulation protein; Provisional

Probab=96.44  E-value=0.0086  Score=60.22  Aligned_cols=35  Identities=23%  Similarity=0.395  Sum_probs=26.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhc-ccCCEEEEE
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMED-KVFDKVVMA  216 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv  216 (1209)
                      .|.|+|++|+||||||+.++...... -+.|.+.|-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~   37 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQ   37 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEec
Confidence            48999999999999999998775432 234556663

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.34  E-value=0.14  Score=59.24  Aligned_cols=88  Identities=23%  Similarity=0.296  Sum_probs=53.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCC---CChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLN---DSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~l~~~  255 (1209)
                      ..+|.++|.+|+||||.|..++.....+. + .+.-+++.. .....+.++.+++.++.+....   .+....+....++
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~  172 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEK  172 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHH
Confidence            56899999999999999999998876532 2 344454432 1233455666777776654322   2223334444444


Q ss_pred             HhcCCeEEEEEeCCCc
Q 038494          256 LTKEKRVLIILDNIWK  271 (1209)
Q Consensus       256 l~~~k~~LlvlDdv~~  271 (1209)
                      +.. . -+||+|..-.
T Consensus       173 ~~~-~-DvVIIDTAGr  186 (437)
T PRK00771        173 FKK-A-DVIIVDTAGR  186 (437)
T ss_pred             hhc-C-CEEEEECCCc
Confidence            442 3 5688887743

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.31  E-value=0.01  Score=69.46  Aligned_cols=75  Identities=25%  Similarity=0.369  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..++..++|++|.||||||+-+++...    | .++=|++|+..+...+-+.|...+.......+              +
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~l~a--------------d  385 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSVLDA--------------D  385 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhcccccc--------------C
Confidence            357899999999999999999988754    3 46778999998888887777766644332222              2


Q ss_pred             CCeEEEEEeCCCcc
Q 038494          259 EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~  272 (1209)
                      +++.-||+|.++-.
T Consensus       386 srP~CLViDEIDGa  399 (877)
T KOG1969|consen  386 SRPVCLVIDEIDGA  399 (877)
T ss_pred             CCcceEEEecccCC
Confidence            57888899988754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.30  E-value=0.018  Score=61.81  Aligned_cols=85  Identities=25%  Similarity=0.337  Sum_probs=55.0

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHH
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPH  247 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~  247 (1209)
                      ...+.+++.  +..-+.++|.+|+|||.||.+++++.. +.. -.+.++++      .++...+.......        .
T Consensus        95 ~~~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g-~sv~f~~~------~el~~~Lk~~~~~~--------~  156 (254)
T COG1484          95 LASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELL-KAG-ISVLFITA------PDLLSKLKAAFDEG--------R  156 (254)
T ss_pred             HHHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHH-HcC-CeEEEEEH------HHHHHHHHHHHhcC--------c
Confidence            344445554  556889999999999999999999998 432 34555654      44556555554321        1


Q ss_pred             HHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          248 RAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       248 ~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ....+.+.+.  +-=|||+||+-.+
T Consensus       157 ~~~~l~~~l~--~~dlLIiDDlG~~  179 (254)
T COG1484         157 LEEKLLRELK--KVDLLIIDDIGYE  179 (254)
T ss_pred             hHHHHHHHhh--cCCEEEEecccCc
Confidence            2223444443  4469999998764

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.27  E-value=0.058  Score=65.51  Aligned_cols=105  Identities=22%  Similarity=0.295  Sum_probs=63.3

Q ss_pred             cchhhHHHHHHHHHHHHh---------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALR---------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~---------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..+..+.+++.         +....++...|+.|+|||.||+.++...-...  +..+-+++|+-..-..   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSEy~EkHs---  565 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSEYMEKHS---  565 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHHHHHHHH---
Confidence            357799999999999887         12345778899999999999999998774321  3344455543211111   


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeE-EEEEeCCCcc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRV-LIILDNIWKK  272 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~-LlvlDdv~~~  272 (1209)
                       +.+-+|.+..-...  +.-..+-+..+ .++| +|.||+++..
T Consensus       566 -VSrLIGaPPGYVGy--eeGG~LTEaVR-r~PySViLlDEIEKA  605 (786)
T COG0542         566 -VSRLIGAPPGYVGY--EEGGQLTEAVR-RKPYSVILLDEIEKA  605 (786)
T ss_pred             -HHHHhCCCCCCcee--ccccchhHhhh-cCCCeEEEechhhhc
Confidence             12223332211111  11223444454 4555 8889999876

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.26  E-value=0.2  Score=51.20  Aligned_cols=192  Identities=15%  Similarity=0.151  Sum_probs=101.0

Q ss_pred             ccccccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      |.....++-|-++.++++++++.-             ...+-+..+|++|.|||-+|++.+..-...  |-.     +..
T Consensus       166 PtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aT--FLK-----LAg  238 (424)
T KOG0652|consen  166 PTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNAT--FLK-----LAG  238 (424)
T ss_pred             CcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccch--HHH-----hcc
Confidence            334456677899999999998751             124567899999999999999988765533  311     111


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC--cc--------------ccCCCCCC
Q 038494          221 NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG--LE--------------EIGIPFGD  284 (1209)
Q Consensus       221 ~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~--~~--------------~l~~~~~~  284 (1209)
                      +        ++.+.+ +.     +....++....--+...+.+|.+|.++....  ++              .+...+..
T Consensus       239 P--------QLVQMf-IG-----dGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDG  304 (424)
T KOG0652|consen  239 P--------QLVQMF-IG-----DGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDG  304 (424)
T ss_pred             h--------HHHhhh-hc-----chHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcC
Confidence            1        011111 11     1133444444333456789999998864410  00              01111111


Q ss_pred             CCccccccccCCcEEEEeccchhhhccc----CCcceEEEcCCCCHHHHHHHHHHHhC--CCCCCCcchHHHHHHHHHhC
Q 038494          285 VDEKDRKQDLRRRTIILTSRSKHLLTND----MNSQKIFLIEVLSKEEALQFFEKIVG--NSAKASAFQPLADEIVGKCG  358 (1209)
Q Consensus       285 ~~~~~~~~~~~~s~ilvTtR~~~v~~~~----~~~~~~~~l~~L~~~e~~~lf~~~~~--~~~~~~~~~~~~~~i~~~~~  358 (1209)
                      ..      ....-+||-.|...++...+    ..-...++.+.-+++.-..+++-++.  ...++-.++++++.--..-|
T Consensus       305 Fs------s~~~vKviAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNG  378 (424)
T KOG0652|consen  305 FS------SDDRVKVIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNG  378 (424)
T ss_pred             CC------CccceEEEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCc
Confidence            00      11356788877766554211    12234566655555444555555543  33444556666554333323


Q ss_pred             CChhHHHHHHHHHh
Q 038494          359 GLPVALSTVANALK  372 (1209)
Q Consensus       359 glPLai~~~~~~l~  372 (1209)
                      .--.|+.+=|++++
T Consensus       379 AQcKAVcVEAGMiA  392 (424)
T KOG0652|consen  379 AQCKAVCVEAGMIA  392 (424)
T ss_pred             hhheeeehhhhHHH
Confidence            33345555566654

>PRK06526 transposase; Provisional

Probab=96.25  E-value=0.0037  Score=66.93  Aligned_cols=74  Identities=20%  Similarity=0.230  Sum_probs=44.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ...+.|+|++|+|||+||..+++....+. + .+.|+      +..++...+......         .........+.  
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g-~-~v~f~------t~~~l~~~l~~~~~~---------~~~~~~l~~l~--  158 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAG-H-RVLFA------TAAQWVARLAAAHHA---------GRLQAELVKLG--  158 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCC-C-chhhh------hHHHHHHHHHHHHhc---------CcHHHHHHHhc--
Confidence            34689999999999999999998776432 2 23343      334455554432110         01112233342  


Q ss_pred             CeEEEEEeCCCcc
Q 038494          260 KRVLIILDNIWKK  272 (1209)
Q Consensus       260 k~~LlvlDdv~~~  272 (1209)
                      +.-+||+||+...
T Consensus       159 ~~dlLIIDD~g~~  171 (254)
T PRK06526        159 RYPLLIVDEVGYI  171 (254)
T ss_pred             cCCEEEEcccccC
Confidence            4568999999754

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.014  Score=65.51  Aligned_cols=89  Identities=19%  Similarity=0.238  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHHHHhCCC---------ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          163 SRMKLFQDVVEALRNDK---------LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~---------~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      .-++|+++++++|.++.         .+-|.++|++|.|||-||++++-+..+-  |    |...+.+|+..      +-
T Consensus       311 EAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFdEm------~V  378 (752)
T KOG0734|consen  311 EAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFDEM------FV  378 (752)
T ss_pred             HHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchhhh------hh
Confidence            34567888888887532         3568899999999999999998776653  2    33333333221      11


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ..|         ...++.+...-+..-+++|.+|.++..
T Consensus       379 GvG---------ArRVRdLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  379 GVG---------ARRVRDLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             ccc---------HHHHHHHHHHHHhcCCeEEEEechhhh
Confidence            111         556677777777678999999999865

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.069  Score=64.28  Aligned_cols=161  Identities=14%  Similarity=0.141  Sum_probs=88.0

Q ss_pred             ccchhhHHHHHHHHHHHHh------C-------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR------N-------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~------~-------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ...+.|-+...+.+.+.+.      +       ...+.+-++|++|.|||.||+++++.....  |-.     +...   
T Consensus       241 ~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~--fi~-----v~~~---  310 (494)
T COG0464         241 LDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSR--FIS-----VKGS---  310 (494)
T ss_pred             eehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCe--EEE-----eeCH---
Confidence            4455555555555554443      1       234578999999999999999999966532  422     2211   


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCC-CCcccc------ccccCCc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGD-VDEKDR------KQDLRRR  297 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~-~~~~~~------~~~~~~s  297 (1209)
                       ++..   +.+       .+.+..++.+...-.+..+..|.+|+++....+..-...... .-....      .....+.
T Consensus       311 -~l~s---k~v-------Gesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v  379 (494)
T COG0464         311 -ELLS---KWV-------GESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGV  379 (494)
T ss_pred             -HHhc---ccc-------chHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCce
Confidence             1100   001       111455556666555578899999999876433221100000 000000      0011233


Q ss_pred             EEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCC
Q 038494          298 TIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGN  339 (1209)
Q Consensus       298 ~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~  339 (1209)
                      .||-||-........+    .-...+.+++-+.++..+.|+.+..+
T Consensus       380 ~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~  425 (494)
T COG0464         380 LVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRD  425 (494)
T ss_pred             EEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcc
Confidence            3444554443322111    23468889999999999999999864

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.23  E-value=0.08  Score=62.00  Aligned_cols=174  Identities=14%  Similarity=0.193  Sum_probs=98.1

Q ss_pred             ccchhhHHHHHHHHHHHHhCC-------------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALRND-------------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~-------------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ++++-|-.+.++.+.+.+.-+             -..-|.++|++|+|||-||.+++.....+       +|+|..+   
T Consensus       666 w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGP---  735 (952)
T KOG0735|consen  666 WEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGP---  735 (952)
T ss_pred             ceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCH---
Confidence            455556666666666665511             13458899999999999999998876543       4666554   


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-------------ccccCCCCCCCCccccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-------------LEEIGIPFGDVDEKDRK  291 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-------------~~~l~~~~~~~~~~~~~  291 (1209)
                       ++   +.+.+|..       ++.++.+..+-+.-+++++.||.+++..-             ..++.-.+. |.     
T Consensus       736 -El---L~KyIGaS-------Eq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelD-G~-----  798 (952)
T KOG0735|consen  736 -EL---LSKYIGAS-------EQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELD-GA-----  798 (952)
T ss_pred             -HH---HHHHhccc-------HHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhc-cc-----
Confidence             12   22333322       56778888888777999999999987520             111111111 10     


Q ss_pred             cccCCcEEEEeccchhhhccc-C--C-cceEEEcCCCCHHHHHHHHHHHhCC--CCCCCcchHHHHHHHHHhCCChh
Q 038494          292 QDLRRRTIILTSRSKHLLTND-M--N-SQKIFLIEVLSKEEALQFFEKIVGN--SAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~-~--~-~~~~~~l~~L~~~e~~~lf~~~~~~--~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                      .+..|--|+-.|...+....+ .  + -.+.+.-+.-++.|-.++|...+..  ....-++    +.++.+.+|..-
T Consensus       799 Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl----~~~a~~T~g~tg  871 (952)
T KOG0735|consen  799 EGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDL----ECLAQKTDGFTG  871 (952)
T ss_pred             cccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccch----HHHhhhcCCCch
Confidence            123566666544444332211 1  2 2233444445666777888776641  1222223    356666666543

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.22  E-value=0.027  Score=60.41  Aligned_cols=93  Identities=20%  Similarity=0.198  Sum_probs=58.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC---------CCC-
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQKIQDKLASDLDLNFDL---------NDS-  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~---------~~~-  244 (1209)
                      ...++.|+|.+|+|||++|.+++........    ...++|++..+.++..++.+ +++..+.....         ... 
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~~   96 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAYNS   96 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecCCH
Confidence            3478999999999999999999865432221    35789999888777655533 34443322110         011 


Q ss_pred             --hHHHHHHHHHHHhcC-CeEEEEEeCCCcc
Q 038494          245 --KPHRAKQLCQRLTKE-KRVLIILDNIWKK  272 (1209)
Q Consensus       245 --~~~~~~~l~~~l~~~-k~~LlvlDdv~~~  272 (1209)
                        .......+.+.+.+. +.-+||+|.+...
T Consensus        97 ~~l~~~l~~l~~~l~~~~~~~liVIDSis~~  127 (235)
T cd01123          97 DHQLQLLEELEAILIESSRIKLVIVDSVTAL  127 (235)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEeCcHHH
Confidence              122334455555555 7789999998653

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.19  E-value=0.039  Score=58.47  Aligned_cols=89  Identities=17%  Similarity=0.253  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCC
Q 038494          167 LFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDS  244 (1209)
Q Consensus       167 ~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~  244 (1209)
                      .+..+.++..+  .....+.++|.+|+|||+||..+++....+  -..++++++      .++...+-.....   .   
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~--g~~v~~it~------~~l~~~l~~~~~~---~---  149 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR--GKSVLIITV------ADIMSAMKDTFSN---S---  149 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEH------HHHHHHHHHHHhh---c---
Confidence            44445544432  223578999999999999999999988653  235566643      4455544443321   0   


Q ss_pred             hHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          245 KPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 ~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                       ......+.+.+.  +.=+||+||+...
T Consensus       150 -~~~~~~~l~~l~--~~dlLvIDDig~~  174 (244)
T PRK07952        150 -ETSEEQLLNDLS--NVDLLVIDEIGVQ  174 (244)
T ss_pred             -cccHHHHHHHhc--cCCEEEEeCCCCC
Confidence             111234555564  3458889999765

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.19  E-value=0.071  Score=58.61  Aligned_cols=29  Identities=24%  Similarity=0.306  Sum_probs=25.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ....+.|||++|+|||.+|+.++++....
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            34688999999999999999999998653

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.18  E-value=0.031  Score=59.52  Aligned_cols=49  Identities=24%  Similarity=0.215  Sum_probs=37.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      ..++.|+|.+|+|||++|.+++.......    .-..++|++....++...+.
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            56999999999999999999987754321    01578999988777765554

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.17  E-value=0.069  Score=66.35  Aligned_cols=157  Identities=11%  Similarity=0.080  Sum_probs=95.2

Q ss_pred             CCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEe
Q 038494          188 MGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILD  267 (1209)
Q Consensus       188 ~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlD  267 (1209)
                      +.++||||+|..++++.-.+..-..++-+++++..+...+. ++++.+.....               +...+.-++|+|
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR-~iIk~~a~~~~---------------~~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIR-EKVKEFARTKP---------------IGGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHH-HHHHHHHhcCC---------------cCCCCCEEEEEE
Confidence            88899999999999987432111246777888765555443 33332211100               001245799999


Q ss_pred             CCCccc--CccccCCCCCCCCccccccccCCcEEEEeccch-hhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCC
Q 038494          268 NIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKAS  344 (1209)
Q Consensus       268 dv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~  344 (1209)
                      +++...  +...+....-...        ..+++|.+|.+. .+..........+.+.+++.++-...+...+.... ..
T Consensus       638 EaD~Lt~~AQnALLk~lEep~--------~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Eg-i~  708 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFS--------SNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG-LE  708 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCC--------CCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcC-CC
Confidence            999873  3444433322211        455666665554 33332335567999999999999988887764221 11


Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHH
Q 038494          345 AFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       345 ~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      -.++....|++.++|-+.....+-.
T Consensus       709 i~~e~L~~Ia~~s~GDlR~AIn~Lq  733 (846)
T PRK04132        709 LTEEGLQAILYIAEGDMRRAINILQ  733 (846)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            1256788999999998755444433

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.14  E-value=0.13  Score=53.38  Aligned_cols=209  Identities=11%  Similarity=0.138  Sum_probs=116.9

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhh----cccCCEEEEEEcCCCc------------
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME----DKVFDKVVMAEVTENP------------  222 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~----~~~f~~~~wv~~s~~~------------  222 (1209)
                      ....++++....+......++.+-..++|++|.||-|.+..+.+..-.    +-.-+...|.+-+..-            
T Consensus        13 ~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHl   92 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHL   92 (351)
T ss_pred             hhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceE
Confidence            346677777777777666677889999999999999998888776532    1123445566544331            


Q ss_pred             ---------CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeE-EEEEeCCCcc--cCccccCCCCCCCCcccc
Q 038494          223 ---------DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRV-LIILDNIWKK--LGLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       223 ---------~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~-LlvlDdv~~~--~~~~~l~~~~~~~~~~~~  290 (1209)
                               .-..+.++++++......-+.             ...++| ++|+-.+++.  ++-.++....-...    
T Consensus        93 EitPSDaG~~DRvViQellKevAQt~qie~-------------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs----  155 (351)
T KOG2035|consen   93 EITPSDAGNYDRVVIQELLKEVAQTQQIET-------------QGQRPFKVVVINEADELTRDAQHALRRTMEKYS----  155 (351)
T ss_pred             EeChhhcCcccHHHHHHHHHHHHhhcchhh-------------ccccceEEEEEechHhhhHHHHHHHHHHHHHHh----
Confidence                     112233333333322211110             012333 4555555543  11112211111111    


Q ss_pred             ccccCCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCC-CCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          291 KQDLRRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSA-KASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                          ..+|+|+..-+-. +........-.++++..+++|....+.+.+.... .-|  ++++++|+++++|.---...+-
T Consensus       156 ----~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllml  229 (351)
T KOG2035|consen  156 ----SNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLML  229 (351)
T ss_pred             ----cCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHH
Confidence                5677776443321 1111123445789999999999999998886322 223  7899999999999743333333


Q ss_pred             HHHh--cC---------ChhHHHHHHHHHhcCC
Q 038494          369 NALK--NK---------KLPVWKDALTQLRNSN  390 (1209)
Q Consensus       369 ~~l~--~~---------~~~~w~~~~~~l~~~~  390 (1209)
                      ..++  +.         ...+|+-+..+.....
T Consensus       230 E~~~~~n~~~~a~~~~i~~~dWe~~i~e~a~~i  262 (351)
T KOG2035|consen  230 EAVRVNNEPFTANSQVIPKPDWEIYIQEIARVI  262 (351)
T ss_pred             HHHHhccccccccCCCCCCccHHHHHHHHHHHH
Confidence            3332  11         3468999888766543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.11  E-value=0.028  Score=62.00  Aligned_cols=91  Identities=18%  Similarity=0.283  Sum_probs=58.4

Q ss_pred             hHHHHHHHHHHHHhC----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC
Q 038494          163 SRMKLFQDVVEALRN----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN  238 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~  238 (1209)
                      +|........+++.+    ...+-+.|+|..|+|||.||..+++....+ .+ .+.++.++      +++..+....+..
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~-g~-~v~~~~~~------~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK-GV-SSTLLHFP------EFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CC-CEEEEEHH------HHHHHHHHHHhcC
Confidence            555555555666652    234678999999999999999999998743 22 34556553      4555555444211


Q ss_pred             CCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          239 FDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       239 ~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                               ......+.+.  +-=|||+||+..+
T Consensus       207 ---------~~~~~l~~l~--~~dlLiIDDiG~e  229 (306)
T PRK08939        207 ---------SVKEKIDAVK--EAPVLMLDDIGAE  229 (306)
T ss_pred             ---------cHHHHHHHhc--CCCEEEEecCCCc
Confidence                     1233444553  5579999999755

>PRK09183 transposase/IS protein; Provisional

Probab=96.10  E-value=0.0082  Score=64.77  Aligned_cols=27  Identities=30%  Similarity=0.361  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+.|+|++|+|||+||..+++....
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~  128 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVR  128 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            346789999999999999999887654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.09  E-value=0.038  Score=56.02  Aligned_cols=92  Identities=17%  Similarity=0.243  Sum_probs=60.2

Q ss_pred             cccccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      +.+...++|-+...+.+++--.    .....-|.+||.-|+||++|++++.+....+  .-.  -|.|... +       
T Consensus        56 ~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~--glr--LVEV~k~-d-------  123 (287)
T COG2607          56 PIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE--GLR--LVEVDKE-D-------  123 (287)
T ss_pred             CcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc--CCe--EEEEcHH-H-------
Confidence            3446678888887777776433    3345578899999999999999999998764  222  2333221 0       


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCccc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKL  273 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~  273 (1209)
                                     ....-.+.+.|+ ..+||+|..||..-++
T Consensus       124 ---------------l~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~  152 (287)
T COG2607         124 ---------------LATLPDLVELLRARPEKFILFCDDLSFEE  152 (287)
T ss_pred             ---------------HhhHHHHHHHHhcCCceEEEEecCCCCCC
Confidence                           112223444444 3588999999987653

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.05  E-value=0.59  Score=52.61  Aligned_cols=173  Identities=16%  Similarity=0.159  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHhCCC---------ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          166 KLFQDVVEALRNDK---------LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       166 ~~~~~l~~~L~~~~---------~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ..++++.+++...+         .|--.++|++|.|||++..++++...    |+. +=+..+...+-            
T Consensus       212 ~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~----ydI-ydLeLt~v~~n------------  274 (457)
T KOG0743|consen  212 RIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLN----YDI-YDLELTEVKLD------------  274 (457)
T ss_pred             HHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcC----Cce-EEeeeccccCc------------
Confidence            44556666665321         24457999999999999999998875    432 21222221111            


Q ss_pred             CCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCC-----------ccccccc----cCCcEE-E
Q 038494          237 LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVD-----------EKDRKQD----LRRRTI-I  300 (1209)
Q Consensus       237 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~-----------~~~~~~~----~~~s~i-l  300 (1209)
                               . .++++...-  ..+-+||+.|++-.-+...-...-..+.           ...++.|    +.+=|| +
T Consensus       275 ---------~-dLr~LL~~t--~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIiv  342 (457)
T KOG0743|consen  275 ---------S-DLRHLLLAT--PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIV  342 (457)
T ss_pred             ---------H-HHHHHHHhC--CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEE
Confidence                     1 133333222  3467888888875522111100000000           0000111    112345 4


Q ss_pred             EeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHH
Q 038494          301 LTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL  371 (1209)
Q Consensus       301 vTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l  371 (1209)
                      +||-..+....++    .....+.|.-=+.+.-..|+.+..+...+    ..++.+|.+...|.-+.=..++..|
T Consensus       343 FTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~----h~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  343 FTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEED----HRLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             EecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCC----cchhHHHHHHhhcCccCHHHHHHHH
Confidence            5776654332111    23457788888999999999998864332    3455566665566555445555433

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

Probab=96.04  E-value=0.0033  Score=66.97  Aligned_cols=107  Identities=22%  Similarity=0.222  Sum_probs=54.0

Q ss_pred             CCeEEEEccCCCCccCCCc------CCCCCccEEEeccCCCcccc--cChhhhcCCCCCcEEEecCcccc-----ccccc
Q 038494          519 KGAIAISIPYGDIQELPER------LECPQLKLLLLLANGDSYLE--ISHLFFEGTEDLKVLSLSGIHFS-----SLSSS  585 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~------~~~~~L~~L~l~~~~~~~~~--~~~~~~~~l~~Lr~L~L~~~~i~-----~lp~~  585 (1209)
                      ..+|.+....|...+-+..      ...+.|..+.+..|+.....  +....|..+++|++|||..|-++     .+...
T Consensus       157 ~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~Laka  236 (382)
T KOG1909|consen  157 PKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKA  236 (382)
T ss_pred             cceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHH
Confidence            4556666655555443321      13456666666665432222  22233456666666666666654     23444


Q ss_pred             ccCCCCCcEEeccCcccCCc------ccc-cCCCCCCEEEccCCCCC
Q 038494          586 LGHLINLQTLCLDWCQLEDV------AAI-GQLKKLEILSFRYSDIK  625 (1209)
Q Consensus       586 i~~l~~L~~L~l~~~~l~~l------~~i-~~L~~L~~L~l~~~~~~  625 (1209)
                      ++.+++|+.|++++|.++.-      ..+ ...++|++|.+.+|.++
T Consensus       237 L~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt  283 (382)
T KOG1909|consen  237 LSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEIT  283 (382)
T ss_pred             hcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhH
Confidence            55566666666666654432      111 12345555555555444

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

Probab=96.04  E-value=0.00077  Score=61.55  Aligned_cols=88  Identities=23%  Similarity=0.325  Sum_probs=58.6

Q ss_pred             cCCCCCcEEEecCcccccccccccC-CCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEe
Q 038494          564 EGTEDLKVLSLSGIHFSSLSSSLGH-LINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLD  641 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp~~i~~-l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~  641 (1209)
                      .+..+|...+|++|.++++|..+.. .+.+++|++.+|.+.++ ..+..++.|+.|+++.|.+...|..|-.|.+|-.|+
T Consensus        50 ~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   50 SKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             hCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            4556677777777777777766553 34677777777777666 446777777777777777777777776677777776


Q ss_pred             ccCCCCCcccC
Q 038494          642 LSNCSSLVVIA  652 (1209)
Q Consensus       642 l~~~~~l~~~~  652 (1209)
                      ..+ +....++
T Consensus       130 s~~-na~~eid  139 (177)
T KOG4579|consen  130 SPE-NARAEID  139 (177)
T ss_pred             CCC-CccccCc
Confidence            665 3343443

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.02  E-value=0.0056  Score=57.75  Aligned_cols=24  Identities=38%  Similarity=0.594  Sum_probs=21.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +|.|.|++|+||||+|+.+++...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            689999999999999999998763

...

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.01  E-value=0.054  Score=60.36  Aligned_cols=154  Identities=15%  Similarity=0.144  Sum_probs=82.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc---------------------cCCEEEEEEcCCCcCHHHHHHHHHHHhCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK---------------------VFDKVVMAEVTENPDVQKIQDKLASDLDLN  238 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~---------------------~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~  238 (1209)
                      ...+.++|+.|+||||+|..++...-...                     |.|. .++.......          .-+  
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~-~~~~p~~~~~----------~~g--   87 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDF-YEITPLSDEP----------ENG--   87 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCE-EEEecccccc----------ccc--
Confidence            35688999999999999999998764211                     1221 1221100000          000  


Q ss_pred             CCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhcc
Q 038494          239 FDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLTN  311 (1209)
Q Consensus       239 ~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~~  311 (1209)
                      ........+.++.+.+.+.    .+++-++|+|+++..+  ....+...+....        .+..+|++|.+.. +...
T Consensus        88 ~~~~~I~id~iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~--------~~~~~Ilvth~~~~ll~t  159 (325)
T PRK08699         88 RKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPP--------PQVVFLLVSHAADKVLPT  159 (325)
T ss_pred             ccCCCcCHHHHHHHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCc--------CCCEEEEEeCChHhChHH
Confidence            0000112556666666654    2344566678887653  1222211111111        3455777777654 3333


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                      .......+.+.+++.+++.+.+.+..   . . . ..   ..+..++|-|+.
T Consensus       160 i~SRc~~~~~~~~~~~~~~~~L~~~~---~-~-~-~~---~~l~~~~g~p~~  202 (325)
T PRK08699        160 IKSRCRKMVLPAPSHEEALAYLRERG---V-A-E-PE---ERLAFHSGAPLF  202 (325)
T ss_pred             HHHHhhhhcCCCCCHHHHHHHHHhcC---C-C-c-HH---HHHHHhCCChhh
Confidence            33456789999999999998886541   1 1 1 11   123568898854

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.97  E-value=0.032  Score=62.65  Aligned_cols=90  Identities=17%  Similarity=0.156  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..++.++|+.|+||||++..++.....+.....+..++... .....+-++...+.++.+...... ..........+. 
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~-~~~l~~~l~~l~-  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKD-GGDLQLALAELR-  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCC-cccHHHHHHHhc-
Confidence            46899999999999999999998865332123566665433 234556667777777766543322 122333444554 


Q ss_pred             CCeEEEEEeCCCcc
Q 038494          259 EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~  272 (1209)
                      ++ -+|++|..-..
T Consensus       215 ~~-DlVLIDTaG~~  227 (374)
T PRK14722        215 NK-HMVLIDTIGMS  227 (374)
T ss_pred             CC-CEEEEcCCCCC
Confidence            33 56779987543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=95.91  E-value=0.011  Score=65.19  Aligned_cols=47  Identities=21%  Similarity=0.331  Sum_probs=40.8

Q ss_pred             chhhHHHHHHHHHHHHhC------CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          160 AFDSRMKLFQDVVEALRN------DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .++|-++.++++++++..      ...+++.++|++|+||||||+.+++....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            688999999999999872      24578999999999999999999988864

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.91  E-value=0.033  Score=59.19  Aligned_cols=45  Identities=22%  Similarity=0.302  Sum_probs=36.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      ..++.|+|.+|+|||++|.+++......  -..++|++.. .++.+.+
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHH
Confidence            5699999999999999999999877643  4678999987 5555544

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.90  E-value=0.054  Score=63.30  Aligned_cols=166  Identities=18%  Similarity=0.124  Sum_probs=86.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc--CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP--DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      .-|.|.|..|+|||+||+++++... +++.-.+.+++++.-.  ..+.+++.+-.                  +...-..
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~------------------vfse~~~  492 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNN------------------VFSEALW  492 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHH------------------HHHHHHh
Confidence            5688999999999999999999887 4555667777776432  23333322221                  1211113


Q ss_pred             CCeEEEEEeCCCcccCccccCCCCCCCCccccc----------cccCCcE--EEEeccchhhhccc----CCcceEEEcC
Q 038494          259 EKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRK----------QDLRRRT--IILTSRSKHLLTND----MNSQKIFLIE  322 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~----------~~~~~s~--ilvTtR~~~v~~~~----~~~~~~~~l~  322 (1209)
                      ..+-+|||||++.......-. .-.++....|+          ....+.+  +|.|.....-....    .--..+..+.
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e-~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~  571 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNE-NGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALP  571 (952)
T ss_pred             hCCcEEEEcchhhhhccCccc-CCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecC
Confidence            578999999997542100000 00000000000          1123444  33344433222111    1223567788


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHHH
Q 038494          323 VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALSTV  367 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~~  367 (1209)
                      .+...+-.++++.......... ..+...-+..+|+|. |.-+.++
T Consensus       572 ap~~~~R~~IL~~~~s~~~~~~-~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  572 APAVTRRKEILTTIFSKNLSDI-TMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             CcchhHHHHHHHHHHHhhhhhh-hhHHHHHHHHhcCCccchhHHHH
Confidence            8888887777776654322111 122233366777663 5544444

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.90  E-value=0.018  Score=73.59  Aligned_cols=106  Identities=21%  Similarity=0.283  Sum_probs=61.9

Q ss_pred             cchhhHHHHHHHHHHHHhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..++.+.+.+...         ...++.++|++|+|||++|+.++......  ....+.++++.-.....+  
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~~--  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHSV--  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccchH--
Confidence            35789999999999888631         13568899999999999999999876432  123344555442221111  


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        .+.++.+.....  -+....+...+......+|+||+++..
T Consensus       641 --~~l~g~~~g~~g--~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       641 --ARLIGAPPGYVG--YEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             --HHhcCCCCCccC--cccccHHHHHHHcCCCcEEEEeccccC
Confidence              111222211100  111123444444334469999999876

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.90  E-value=0.026  Score=55.19  Aligned_cols=35  Identities=26%  Similarity=0.323  Sum_probs=28.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEE
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMA  216 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  216 (1209)
                      ....+.|+|++|.||||+.+.+|...+..   .+.+|+
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e~pt---~G~i~~   61 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEERPT---RGKILV   61 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhhcCC---CceEEE
Confidence            34688999999999999999999988764   344454

>TIGR02012 tigrfam_recA protein RecA

Probab=95.89  E-value=0.019  Score=63.10  Aligned_cols=87  Identities=17%  Similarity=0.178  Sum_probs=56.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----CCCChHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-----LNDSKPHRAKQLC  253 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----~~~~~~~~~~~l~  253 (1209)
                      ..+++-|+|++|+||||||.+++......  -..++|++..+.++..     .++.++.+.+     .....++....+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34789999999999999999988776543  3567899887766653     3455554321     1122233333343


Q ss_pred             HHHhcCCeEEEEEeCCCcc
Q 038494          254 QRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ..+.++..-+||+|.|...
T Consensus       127 ~li~~~~~~lIVIDSv~al  145 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVAAL  145 (321)
T ss_pred             HHhhccCCcEEEEcchhhh
Confidence            3344456789999998654

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.87  E-value=0.52  Score=54.11  Aligned_cols=37  Identities=30%  Similarity=0.366  Sum_probs=28.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV  218 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  218 (1209)
                      ..+|.++|..|+||||.|..++...+.+. + .+..|+.
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G-~-kV~lV~~  136 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKG-F-KPCLVCA  136 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC-C-CEEEEcC
Confidence            57999999999999999999998776432 2 4455544

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.85  E-value=0.011  Score=71.67  Aligned_cols=156  Identities=17%  Similarity=0.198  Sum_probs=95.8

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-----EEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-----KVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-----~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...++||++++.++++.|......--.++|.+|+|||++|.-++.+....+-..     .++-.++             .
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~-------------g  235 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDL-------------G  235 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecH-------------H
Confidence            556889999999999999854434446899999999999999998876543221     1121111             1


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCcc-----------ccCCCCCCCCccccccccCCcEEEE
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE-----------EIGIPFGDVDEKDRKQDLRRRTIIL  301 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~-----------~l~~~~~~~~~~~~~~~~~~s~ilv  301 (1209)
                      .-..+....... ++.+..+.+++.+.++.+|++|.+...-...           -+.+.+..          ..-++|-
T Consensus       236 ~LvAGakyRGeF-EeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR----------GeL~~IG  304 (786)
T COG0542         236 SLVAGAKYRGEF-EERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR----------GELRCIG  304 (786)
T ss_pred             HHhccccccCcH-HHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc----------CCeEEEE
Confidence            111112222222 6778888888886668999999987652111           11111111          1234444


Q ss_pred             -eccchhh---h--cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          302 -TSRSKHL---L--TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       302 -TtR~~~v---~--~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                       ||-++.-   -  .........+.+..-+.+++..+++-..
T Consensus       305 ATT~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         305 ATTLDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             eccHHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence             4433321   0  0012456788999999999999987654

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.85  E-value=0.031  Score=61.81  Aligned_cols=92  Identities=21%  Similarity=0.237  Sum_probs=59.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc----ccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC---------CChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED----KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN---------DSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~---------~~~~  246 (1209)
                      ..++-|+|.+|+|||++|.+++-.....    ..-..++|++....++++++.+ ++++++.+....         ...+
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCHH
Confidence            4688899999999999999987544321    1124789999999888888754 667776543210         1112


Q ss_pred             HH---HHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          247 HR---AKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ~~---~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.   +..+...+.+++--|||+|.+...
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSisal  203 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSIMAL  203 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcchHh
Confidence            22   233333444445568999988543

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=95.84  E-value=0.068  Score=57.13  Aligned_cols=93  Identities=23%  Similarity=0.337  Sum_probs=59.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC------CCCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN------FDLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~------~~~~~~~------  245 (1209)
                      +...+.|+|.+|+|||||++.+++..+.+ +-+.++++-+.+.. .+.++.+.+...-...      ...+...      
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~-~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKA-HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            34678999999999999999999998753 23466777777654 4556666554431111      0111111      


Q ss_pred             HHHHHHHHHHHh-c-CCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-K-EKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~-~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. + ++.+|+++||+...
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence            112234555554 3 79999999998654

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.84  E-value=0.21  Score=53.55  Aligned_cols=169  Identities=18%  Similarity=0.208  Sum_probs=97.1

Q ss_pred             chhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-----CHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-----DVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-----~~~~l~~~  230 (1209)
                      .++|-.++..++..++.    .+....+.|+|+.|.|||+|......+.+.  .=+..+-|......     .+..+.++
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~--~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQE--NGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHh--cCCeEEEEEECccchhhHHHHHHHHHH
Confidence            56788888888888776    355678889999999999998888877321  11233334443322     23344444


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhc-----CCeEEEEEeCCCcccCc-------cccCCCCCCCCccccccccCCcE
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTK-----EKRVLIILDNIWKKLGL-------EEIGIPFGDVDEKDRKQDLRRRT  298 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~-----~k~~LlvlDdv~~~~~~-------~~l~~~~~~~~~~~~~~~~~~s~  298 (1209)
                      +..++.........-.+....+...|..     +-+++.|+|.++-....       .-+........        +-+-
T Consensus       103 l~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~--------Pici  174 (408)
T KOG2228|consen  103 LALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARA--------PICI  174 (408)
T ss_pred             HHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCC--------CeEE
Confidence            4444333222222224556677777763     23488888888654211       11111111111        5667


Q ss_pred             EEEeccchhhh------cccCCcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          299 IILTSRSKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       299 ilvTtR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      |-+|||-...-      ......-.++-++.++-++-.+++++...
T Consensus       175 ig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  175 IGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             EEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            78899874321      11122234666777888888888888763

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.82  E-value=0.051  Score=54.36  Aligned_cols=40  Identities=38%  Similarity=0.464  Sum_probs=31.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ++.|+|.+|+||||++..++......  -..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATK--GGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhc--CCEEEEEECCcchH
Confidence            36899999999999999999887642  45788888766543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PTZ00494 tuzin-like protein; Provisional

Probab=95.82  E-value=0.44  Score=53.21  Aligned_cols=162  Identities=12%  Similarity=0.069  Sum_probs=96.8

Q ss_pred             ccchhhHHHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ...++.|+++-..+.+.|.+   ...+++++.|.-|.||++|.+....+...     ..++|++....   +-++.+.+.
T Consensus       370 ~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~-----paV~VDVRg~E---DtLrsVVKA  441 (664)
T PTZ00494        370 EAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGV-----ALVHVDVGGTE---DTLRSVVRA  441 (664)
T ss_pred             cccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCC-----CeEEEEecCCc---chHHHHHHH
Confidence            55788999887777777763   34689999999999999999998877654     25678887664   456788899


Q ss_pred             hCCCCCCC-CChHHHHH-HH---HHHHhcCCeEEEEE--eCCCccc-CccccCCCCCCCCccccccccCCcEEEEeccch
Q 038494          235 LDLNFDLN-DSKPHRAK-QL---CQRLTKEKRVLIIL--DNIWKKL-GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK  306 (1209)
Q Consensus       235 l~~~~~~~-~~~~~~~~-~l---~~~l~~~k~~Llvl--Ddv~~~~-~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~  306 (1209)
                      ++.+..+. .+..+-+. ..   .... .++.=+||+  -+-.+.. ...+. ..+....        +-|.|++----+
T Consensus       442 LgV~nve~CGDlLdFI~ea~~~A~~~~-~g~~P~lVlkLREGssL~RVYnE~-vaLacDr--------RlCHvv~EVplE  511 (664)
T PTZ00494        442 LGVSNVEVCGDLLGFVEEAMRGATVKA-SDGVPFLVMRLREGSDLGRVYGEV-VSLVSDC--------QACHIVLAVPMK  511 (664)
T ss_pred             hCCCChhhhccHHHHHHHHHHHHHHhc-CCCCCEEEEEeccCCcHHHHHHHH-HHHHccc--------hhheeeeechHh
Confidence            98765332 22111111 11   1112 234344443  2222211 01110 0111111        456677654443


Q ss_pred             hhh--cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          307 HLL--TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       307 ~v~--~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      ...  ......-..|-+++++.++|.++-.+..
T Consensus       512 SLT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        512 ALTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            321  2233455789999999999999887664

>PRK09354 recA recombinase A; Provisional

Probab=95.82  E-value=0.044  Score=60.78  Aligned_cols=86  Identities=17%  Similarity=0.171  Sum_probs=57.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----CCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-----LNDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  254 (1209)
                      .+++-|+|++|+||||||.+++......  -..++|++..+.++..     .++.++.+.+     .....++....+..
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~  132 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADT  132 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4688999999999999999998776543  3578899988877753     3555554321     11222333333333


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+.++..-+||+|-|-..
T Consensus       133 li~s~~~~lIVIDSvaaL  150 (349)
T PRK09354        133 LVRSGAVDLIVVDSVAAL  150 (349)
T ss_pred             HhhcCCCCEEEEeChhhh
Confidence            344556789999998654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.81  E-value=0.025  Score=71.97  Aligned_cols=106  Identities=19%  Similarity=0.236  Sum_probs=60.6

Q ss_pred             cchhhHHHHHHHHHHHHhC-------CC--ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN-------DK--LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~-------~~--~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..++.+.+.+..       ..  ..++.++|+.|+|||++|+.+++..-..  -...+-++.++-.....+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC--ccceEEEEchhccccccH--
Confidence            4577999999999888751       11  2456799999999999999999876422  122344444432221111  


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        .+.++.+.....  -+....+...+......+|++|+++..
T Consensus       585 --~~l~g~~~gyvg--~~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        585 --SKLIGSPPGYVG--YNEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             --HHhcCCCCcccC--cCccchHHHHHHhCCCeEEEECChhhC
Confidence              111222111000  011123445555434469999999876

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.79  E-value=0.05  Score=59.65  Aligned_cols=87  Identities=22%  Similarity=0.313  Sum_probs=51.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      .++|+|+|++|+||||++..++.....+..-..+..++..... ...+.+....+.++.+...... ........+.+. 
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~-~~~l~~~l~~~~-  271 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARD-PKELRKALDRLR-  271 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCC-HHHHHHHHHHcc-
Confidence            4699999999999999999999877643111245666654321 2333344445555655433333 333444445553 


Q ss_pred             CCeEEEEEeCC
Q 038494          259 EKRVLIILDNI  269 (1209)
Q Consensus       259 ~k~~LlvlDdv  269 (1209)
                       ..=+|++|..
T Consensus       272 -~~d~vliDt~  281 (282)
T TIGR03499       272 -DKDLILIDTA  281 (282)
T ss_pred             -CCCEEEEeCC
Confidence             2357777764

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.75  E-value=0.024  Score=62.28  Aligned_cols=86  Identities=20%  Similarity=0.178  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----CCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-----LNDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  254 (1209)
                      .+++-|+|++|+||||||.+++......  -..++|++..+.++..     .++.++.+.+     .....++....+..
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~  127 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADS  127 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHH
Confidence            5688999999999999999998776543  3568899987776653     3444444321     11122333333333


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+.++..-+||+|-|...
T Consensus       128 li~s~~~~lIVIDSvaal  145 (325)
T cd00983         128 LVRSGAVDLIVVDSVAAL  145 (325)
T ss_pred             HHhccCCCEEEEcchHhh
Confidence            334456789999998644

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.70  E-value=0.025  Score=57.43  Aligned_cols=37  Identities=24%  Similarity=0.476  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      ...+|.+.|+.|.||||+|+.+++.....  +..++++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~--~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK--YSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEe
Confidence            34689999999999999999999888643  55555553

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.68  E-value=0.014  Score=55.26  Aligned_cols=30  Identities=43%  Similarity=0.556  Sum_probs=25.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD  211 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~  211 (1209)
                      --|.|.|++|+||||+++.+++..+.+. |.
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g-~k   35 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKG-YK   35 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcC-ce
Confidence            4689999999999999999999998754 44

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=95.68  E-value=0.49  Score=48.19  Aligned_cols=93  Identities=20%  Similarity=0.242  Sum_probs=59.5

Q ss_pred             cchhhHHHHHHHHHHHHh-------------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          159 EAFDSRMKLFQDVVEALR-------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~-------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      .++-|-+-.++++.++.+             =+..+-|.++|++|+|||-||++|++.-...  |     +.|-..   +
T Consensus       155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~--f-----irvvgs---e  224 (408)
T KOG0727|consen  155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAA--F-----IRVVGS---E  224 (408)
T ss_pred             cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchh--e-----eeeccH---H
Confidence            345566766777776654             1345678899999999999999999876643  4     322211   1


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                       .   .-+.+|..       ...++.+.+--+++.+-+|.+|.++..
T Consensus       225 -f---vqkylgeg-------prmvrdvfrlakenapsiifideidai  260 (408)
T KOG0727|consen  225 -F---VQKYLGEG-------PRMVRDVFRLAKENAPSIIFIDEIDAI  260 (408)
T ss_pred             -H---HHHHhccC-------cHHHHHHHHHHhccCCcEEEeehhhhH
Confidence             1   12223321       345566666556678899999998765

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=95.68  E-value=0.017  Score=58.25  Aligned_cols=74  Identities=24%  Similarity=0.328  Sum_probs=45.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ..-+.++|..|+|||.||..+++....+.  ..+.|+++      .+++..+-.    ... ..    ......+.+.  
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g--~~v~f~~~------~~L~~~l~~----~~~-~~----~~~~~~~~l~--  107 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKG--YSVLFITA------SDLLDELKQ----SRS-DG----SYEELLKRLK--  107 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEH------HHHHHHHHC----CHC-CT----THCHHHHHHH--
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCC--cceeEeec------Cceeccccc----ccc-cc----chhhhcCccc--
Confidence            45799999999999999999998876532  24566654      344444432    111 11    1223455665  


Q ss_pred             CeEEEEEeCCCcc
Q 038494          260 KRVLIILDNIWKK  272 (1209)
Q Consensus       260 k~~LlvlDdv~~~  272 (1209)
                      +-=|||+||+-..
T Consensus       108 ~~dlLilDDlG~~  120 (178)
T PF01695_consen  108 RVDLLILDDLGYE  120 (178)
T ss_dssp             TSSCEEEETCTSS
T ss_pred             cccEeccccccee
Confidence            3468889999765

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.66  E-value=0.2  Score=61.82  Aligned_cols=177  Identities=16%  Similarity=0.158  Sum_probs=90.2

Q ss_pred             ccchhhHHHHHHHHHHH---HhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEA---LRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~---L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ...+.|.+..++++.+.   +.+.         -.+-|.++|++|+|||++|+.++......  |   +.++.++     
T Consensus       151 ~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~--f---~~is~~~-----  220 (644)
T PRK10733        151 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP--F---FTISGSD-----  220 (644)
T ss_pred             HHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC--E---EEEehHH-----
Confidence            44556666555554443   3221         12358999999999999999998876532  2   2222221     


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc------c------ccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD------R------KQD  293 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~------~------~~~  293 (1209)
                       +... .  .+.       .....+.+........+.+|++|+++....-..-  ....+....      .      ...
T Consensus       221 -~~~~-~--~g~-------~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~--~~~g~~~~~~~~ln~lL~~mdg~~~  287 (644)
T PRK10733        221 -FVEM-F--VGV-------GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGA--GLGGGHDEREQTLNQMLVEMDGFEG  287 (644)
T ss_pred             -hHHh-h--hcc-------cHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCC--CCCCCchHHHHHHHHHHHhhhcccC
Confidence             1110 0  010       0233344444444457899999999765210000  000000000      0      001


Q ss_pred             cCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC
Q 038494          294 LRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG  359 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g  359 (1209)
                      ..+.-+|.||...+......    .....+.++..+.++-.+++..+.......++.  ....+++.+.|
T Consensus       288 ~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~--d~~~la~~t~G  355 (644)
T PRK10733        288 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPG  355 (644)
T ss_pred             CCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcC--CHHHHHhhCCC
Confidence            13444555776655432222    234678888888888888888877533222111  12345666555

>PRK04296 thymidine kinase; Provisional

Probab=95.65  E-value=0.013  Score=60.01  Aligned_cols=111  Identities=16%  Similarity=0.044  Sum_probs=62.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC--CCChHHHHHHHHHHHhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL--NDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l~~  258 (1209)
                      .++.|+|..|.||||+|..++.+....  -..++.+.  ..++.......++++++.....  .....+....+.+  ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hC
Confidence            477899999999999999999887643  23344442  1112222233456666543322  1121233333333  33


Q ss_pred             CCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          259 EKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      ++.-+||+|.+...  ++..++...+.          ..|..|++|.+..+
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l~----------~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVLD----------DLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHHH----------HcCCeEEEEecCcc
Confidence            45568999999643  11222222111          16778999988854

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.64  E-value=0.029  Score=71.30  Aligned_cols=106  Identities=19%  Similarity=0.235  Sum_probs=60.1

Q ss_pred             cchhhHHHHHHHHHHHHhC-------CC--ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN-------DK--LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~-------~~--~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..++.+.+.+..       ..  ..++.++|+.|+|||++|+.+++.....  -...+.++++.-.. ..   
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~-~~---  641 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS--DDAMVRIDMSEFME-KH---  641 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhh-hh---
Confidence            3577988888888888762       11  2478899999999999999999766422  12334555543211 11   


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+.+-+|.+.....  .+....+...+.....-+|+|||++..
T Consensus       642 ~~~~LiG~~pgy~g--~~~~g~l~~~v~~~p~~vLllDEieka  682 (857)
T PRK10865        642 SVSRLVGAPPGYVG--YEEGGYLTEAVRRRPYSVILLDEVEKA  682 (857)
T ss_pred             hHHHHhCCCCcccc--cchhHHHHHHHHhCCCCeEEEeehhhC
Confidence            11122332211111  111122334443334479999999865

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.64  E-value=0.27  Score=53.89  Aligned_cols=162  Identities=9%  Similarity=0.075  Sum_probs=92.3

Q ss_pred             HHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHh--------hcccCCEEEEEEc-CCCcCHHHHHHHHHHHhCC
Q 038494          168 FQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVM--------EDKVFDKVVMAEV-TENPDVQKIQDKLASDLDL  237 (1209)
Q Consensus       168 ~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~--------~~~~f~~~~wv~~-s~~~~~~~l~~~i~~~l~~  237 (1209)
                      ++.+...+..++ ..+..++|..|.||+++|..+++..-        ...|.+-+.++.. +....+             
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~v-------------   71 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSK-------------   71 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCH-------------
Confidence            344555555544 45667999999999999999998872        2223323333322 112222             


Q ss_pred             CCCCCCChHHHHHHHHHHHh-----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc-hhhh
Q 038494          238 NFDLNDSKPHRAKQLCQRLT-----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-KHLL  309 (1209)
Q Consensus       238 ~~~~~~~~~~~~~~l~~~l~-----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-~~v~  309 (1209)
                               +.++.+.+.+.     ++.+-++|+||++...  ....+...+-...        .++.+|++|.+ ..+.
T Consensus        72 ---------d~Ir~l~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp--------~~t~~il~~~~~~kll  134 (299)
T PRK07132         72 ---------SEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPP--------KDTYFLLTTKNINKVL  134 (299)
T ss_pred             ---------HHHHHHHHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhCCC--------CCeEEEEEeCChHhCh
Confidence                     23333333332     1467788999987653  2333332222222        45666655543 4444


Q ss_pred             cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          310 TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       310 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      .+.......+++.++++++..+.+... +   .   .++.+..++...+|.=-|+..
T Consensus       135 ~TI~SRc~~~~f~~l~~~~l~~~l~~~-~---~---~~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        135 PTIVSRCQVFNVKEPDQQKILAKLLSK-N---K---EKEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             HHHHhCeEEEECCCCCHHHHHHHHHHc-C---C---ChhHHHHHHHHcCCHHHHHHH
Confidence            333456789999999999998887654 1   1   124466666666763344444

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.62  E-value=0.058  Score=58.07  Aligned_cols=92  Identities=26%  Similarity=0.246  Sum_probs=58.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc----ccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC---------CCCh-
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED----KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL---------NDSK-  245 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~---------~~~~-  245 (1209)
                      ..++=|+|.+|+|||+||.+++-.....    ..-..++|++-...+..+++. +|++..+.+...         ..+. 
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            3588899999999999999988665321    122479999999999888875 466665432110         0111 


Q ss_pred             --HHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          246 --PHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 --~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        ...+..+...+.+.+--|||+|.+-..
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIaal  145 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIAAL  145 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSHH
T ss_pred             HHHHHHHHHHhhccccceEEEEecchHHH
Confidence              122223333344456679999998543

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.60  E-value=0.07  Score=59.51  Aligned_cols=91  Identities=19%  Similarity=0.181  Sum_probs=58.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh----cccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC---------CChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME----DKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN---------DSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~----~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~---------~~~~  246 (1209)
                      ..++-|+|.+|+|||+|+.+++-....    ...-..++|++....|.++++.+ +++.++.+....         .+.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCHH
Confidence            467889999999999999999754432    11124789999999999888755 667776543211         1112


Q ss_pred             HHH---HHHHHHHhcCCeEEEEEeCCCc
Q 038494          247 HRA---KQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       247 ~~~---~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      ++.   ..+...+.+.+--|||+|.+-.
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSita  232 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSVIA  232 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCcHH
Confidence            222   2232334334556889998754

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.59  E-value=0.084  Score=61.36  Aligned_cols=89  Identities=19%  Similarity=0.277  Sum_probs=51.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      ...+|+|+|.+|+||||++..++.....+.....+..++... .....+.++...+.++........ ........+.+.
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d-~~~L~~aL~~l~  427 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADS-AESLLDLLERLR  427 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCc-HHHHHHHHHHhc
Confidence            357999999999999999999988765432233455555432 112233333444445443332222 233444455553


Q ss_pred             cCCeEEEEEeCCC
Q 038494          258 KEKRVLIILDNIW  270 (1209)
Q Consensus       258 ~~k~~LlvlDdv~  270 (1209)
                        ..-+|++|..-
T Consensus       428 --~~DLVLIDTaG  438 (559)
T PRK12727        428 --DYKLVLIDTAG  438 (559)
T ss_pred             --cCCEEEecCCC
Confidence              34588888874

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.59  E-value=0.02  Score=70.93  Aligned_cols=102  Identities=18%  Similarity=0.204  Sum_probs=59.7

Q ss_pred             chhhHHHHHHHHHHHHhC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.++.++.+.+.+..         .....+.++|++|+|||.+|+.++.....     ..+.+++++-....    .
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~-----~~i~id~se~~~~~----~  529 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERH----T  529 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC-----CcEEeechhhcccc----c
Confidence            467888888888888761         12356889999999999999999887732     22344544322111    1


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.+-+|.+.....  ......+.+.+......+|+||+++..
T Consensus       530 ~~~LiG~~~gyvg--~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        530 VSRLIGAPPGYVG--FDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             HHHHcCCCCCccc--ccccchHHHHHHhCCCcEEEeccHhhh
Confidence            2222232211100  011112333444345579999999977

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=95.56  E-value=0.37  Score=54.62  Aligned_cols=43  Identities=26%  Similarity=0.471  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          165 MKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       165 ~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +...+.|.+.+.+   ....+|+|.|.=|+|||++.+.+.+..+..
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            3445667777764   456899999999999999999999888765

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK06696 uridine kinase; Validated

Probab=95.51  E-value=0.023  Score=60.11  Aligned_cols=44  Identities=23%  Similarity=0.442  Sum_probs=36.8

Q ss_pred             hHHHHHHHHHHHHh---CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          163 SRMKLFQDVVEALR---NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       163 gR~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|++.+++|.+.+.   .+...+|+|.|.+|.||||+|+.+++....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            47777888888875   355679999999999999999999988754

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.48  E-value=0.00092  Score=68.46  Aligned_cols=57  Identities=23%  Similarity=0.278  Sum_probs=23.9

Q ss_pred             CCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccch--hccCCCCCCEEeccC
Q 038494          588 HLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPL--EIGQLAQLQLLDLSN  644 (1209)
Q Consensus       588 ~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~l~~  644 (1209)
                      +++.|++|.|+-|.|+.+..+..+++|+.|.|+.|.|..+-.  -+.++++|++|.+..
T Consensus        39 kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~E   97 (388)
T KOG2123|consen   39 KMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDE   97 (388)
T ss_pred             hcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhcc
Confidence            344444444444444444444444444444444444333321  133444444444443

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.42  E-value=0.069  Score=55.69  Aligned_cols=94  Identities=19%  Similarity=0.195  Sum_probs=63.8

Q ss_pred             ccchhhHHHHHHHHHHHHh---------C---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---------N---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---------~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      +.++.|-+..++.|.++..         .   ..-+-|.++|++|.||+-||++|+......       |.+||...   
T Consensus       132 WsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST-------FFSvSSSD---  201 (439)
T KOG0739|consen  132 WSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST-------FFSVSSSD---  201 (439)
T ss_pred             hhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc-------eEEeehHH---
Confidence            5566777777788877654         1   124678999999999999999999887632       34444432   


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                       +...   .+|       +.+..+..+.+--++.|+-+|.+|.++..
T Consensus       202 -LvSK---WmG-------ESEkLVknLFemARe~kPSIIFiDEiDsl  237 (439)
T KOG0739|consen  202 -LVSK---WMG-------ESEKLVKNLFEMARENKPSIIFIDEIDSL  237 (439)
T ss_pred             -HHHH---Hhc-------cHHHHHHHHHHHHHhcCCcEEEeehhhhh
Confidence             2111   111       12556666666666789999999999754

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.40  E-value=0.06  Score=60.13  Aligned_cols=91  Identities=16%  Similarity=0.129  Sum_probs=57.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc----ccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC---------CChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED----KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN---------DSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~---------~~~~  246 (1209)
                      ..++-|+|.+|+|||++|..++-.....    ..-..++|++....+.++++ .++++.++.+....         ...+
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~e  201 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNTD  201 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCHH
Confidence            4688899999999999999888544321    11237999999999988876 45677766543211         1112


Q ss_pred             HHH---HHHHHHHhcCCeEEEEEeCCCc
Q 038494          247 HRA---KQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       247 ~~~---~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      +..   ..+...+...+.-|||+|-+..
T Consensus       202 ~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        202 HQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence            222   2222223344567888888754

>PRK06921 hypothetical protein; Provisional

Probab=95.37  E-value=0.076  Score=57.50  Aligned_cols=72  Identities=24%  Similarity=0.332  Sum_probs=45.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ....+.++|..|+|||+||..+++....+. -..++|++..      +++..+...+           .......+.+. 
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~~------~l~~~l~~~~-----------~~~~~~~~~~~-  176 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPFV------EGFGDLKDDF-----------DLLEAKLNRMK-  176 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEHH------HHHHHHHHHH-----------HHHHHHHHHhc-
Confidence            356789999999999999999999876431 2345666642      3333332221           11122334443 


Q ss_pred             CCeEEEEEeCCC
Q 038494          259 EKRVLIILDNIW  270 (1209)
Q Consensus       259 ~k~~LlvlDdv~  270 (1209)
                       +--|||+||+.
T Consensus       177 -~~dlLiIDDl~  187 (266)
T PRK06921        177 -KVEVLFIDDLF  187 (266)
T ss_pred             -CCCEEEEeccc
Confidence             44699999993

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.35  E-value=0.11  Score=55.50  Aligned_cols=49  Identities=14%  Similarity=0.232  Sum_probs=36.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ...++.|.|.+|+|||++|.++......+  -..++|++..+  +..++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHHH
Confidence            35789999999999999999988765432  35678888755  445555543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.30  E-value=0.074  Score=52.60  Aligned_cols=27  Identities=37%  Similarity=0.614  Sum_probs=23.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +.|.+.|.+|+||||+|+++++..+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            467899999999999999999888754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.30  E-value=0.17  Score=56.61  Aligned_cols=90  Identities=17%  Similarity=0.182  Sum_probs=51.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      +.++|+++|.+|+||||++..++.....+.  ..+..++.... ....+-++..++..+.+...... ...+......+.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~G--kkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d-~~~L~~aL~~lk  316 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRD-EAAMTRALTYFK  316 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcC--CcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCC-HHHHHHHHHHHH
Confidence            347999999999999999999998775432  23455554322 12333334445555555432333 233334444444


Q ss_pred             c-CCeEEEEEeCCCc
Q 038494          258 K-EKRVLIILDNIWK  271 (1209)
Q Consensus       258 ~-~k~~LlvlDdv~~  271 (1209)
                      . .+.=+|++|-.-.
T Consensus       317 ~~~~~DvVLIDTaGR  331 (436)
T PRK11889        317 EEARVDYILIDTAGK  331 (436)
T ss_pred             hccCCCEEEEeCccc
Confidence            2 1235677887644

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.21  E-value=0.0015  Score=66.98  Aligned_cols=80  Identities=28%  Similarity=0.213  Sum_probs=62.0

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc---ccccCCCCCCEE
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEIL  617 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l---~~i~~L~~L~~L  617 (1209)
                      .+.+-|++.+++  +..+  +++.+++.|.+|.|+-|.|+.|.. +.+|++|+.|+|+.|.|.++   .-+.++++|+.|
T Consensus        19 ~~vkKLNcwg~~--L~DI--sic~kMp~lEVLsLSvNkIssL~p-l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   19 ENVKKLNCWGCG--LDDI--SICEKMPLLEVLSLSVNKISSLAP-LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHhhhhcccCCC--ccHH--HHHHhcccceeEEeeccccccchh-HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            344455555553  2211  346789999999999999998854 88999999999999998887   678899999999


Q ss_pred             EccCCCCC
Q 038494          618 SFRYSDIK  625 (1209)
Q Consensus       618 ~l~~~~~~  625 (1209)
                      .|..|...
T Consensus        94 WL~ENPCc  101 (388)
T KOG2123|consen   94 WLDENPCC  101 (388)
T ss_pred             hhccCCcc
Confidence            99887543

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.19  E-value=0.14  Score=54.49  Aligned_cols=30  Identities=30%  Similarity=0.575  Sum_probs=26.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ....+|+|.|..|.|||||++.++......
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            456799999999999999999999887754

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.19  E-value=0.074  Score=59.12  Aligned_cols=91  Identities=18%  Similarity=0.161  Sum_probs=55.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc---c-cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC---------CCChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED---K-VFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL---------NDSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~---~-~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~---------~~~~~  246 (1209)
                      ..++.|+|.+|+|||+++..++......   . .-..++|++....+...++ .++++.++.....         ....+
T Consensus        96 g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~~~  174 (316)
T TIGR02239        96 GSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYNTD  174 (316)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCChH
Confidence            5789999999999999999988643221   1 1236799999888877764 4456665543211         01112


Q ss_pred             HH---HHHHHHHHhcCCeEEEEEeCCCc
Q 038494          247 HR---AKQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       247 ~~---~~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      +.   +..+...+...+.-|||+|-+-.
T Consensus       175 ~~~~~l~~~~~~~~~~~~~LvVIDSI~a  202 (316)
T TIGR02239       175 HQLQLLQQAAAMMSESRFALLIVDSATA  202 (316)
T ss_pred             HHHHHHHHHHHhhccCCccEEEEECcHH
Confidence            22   22222223334566888888754

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.18  E-value=0.11  Score=58.18  Aligned_cols=57  Identities=26%  Similarity=0.283  Sum_probs=42.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHHHHHHHHHHHhCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQKIQDKLASDLDL  237 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~~l~~~i~~~l~~  237 (1209)
                      ..++-|+|.+|+|||++|.+++........    =..++|++..+.+++.++.+ +++.++.
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~  162 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGL  162 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCC
Confidence            568889999999999999999876542211    14789999998888877654 4455543

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

Probab=95.17  E-value=0.0036  Score=57.33  Aligned_cols=73  Identities=19%  Similarity=0.251  Sum_probs=47.2

Q ss_pred             cChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchh
Q 038494          558 ISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLE  630 (1209)
Q Consensus       558 ~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~  630 (1209)
                      .|..+-.+++.+..|++++|.+.++|..+..++.||.|+++.|++... .-+..|.+|-+|+..++....+|-.
T Consensus        68 fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen   68 FPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             CCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            344444455566667777777777777777777777777777776555 5555677777777776666555543

>cd01394 radB RadB

Probab=95.15  E-value=0.084  Score=55.78  Aligned_cols=43  Identities=23%  Similarity=0.252  Sum_probs=33.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ...++.|.|.+|+||||+|.+++.....+  -..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH
Confidence            35789999999999999999999877543  34678887765543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.14  E-value=0.029  Score=59.22  Aligned_cols=28  Identities=36%  Similarity=0.514  Sum_probs=25.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      -++|.++|++|.|||+|+++.++...++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR  204 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIR  204 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheee
Confidence            3789999999999999999999998663

>PRK14974 cell division protein FtsY; Provisional

Probab=95.13  E-value=0.26  Score=54.96  Aligned_cols=91  Identities=19%  Similarity=0.206  Sum_probs=52.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc--CHHHHHHHHHHHhCCCCCCC---CChHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP--DVQKIQDKLASDLDLNFDLN---DSKPHRAKQLC  253 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~l~  253 (1209)
                      +..+|.++|++|+||||.+..++...... .+ .++.+.. +.+  ...+-++..++.++.+....   .+....+....
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~-g~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GF-SVVIAAG-DTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEecC-CcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            35799999999999999999998877643 23 3444443 332  23344566677777554221   12222222222


Q ss_pred             HHHhcCCeEEEEEeCCCcc
Q 038494          254 QRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.......-+|++|..-..
T Consensus       216 ~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHhCCCCEEEEECCCcc
Confidence            2222222238899987654

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.12  E-value=0.11  Score=58.31  Aligned_cols=57  Identities=26%  Similarity=0.283  Sum_probs=42.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHHHHHHHHhCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQDKLASDLDL  237 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~~~i~~~l~~  237 (1209)
                      ..++-|+|.+|+|||++|.+++.......    .-..++||+..+.++..++. ++++.++.
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            46889999999999999999987754211    11379999999888887764 44555543

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=95.10  E-value=0.11  Score=52.53  Aligned_cols=88  Identities=20%  Similarity=0.252  Sum_probs=46.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~~l~  257 (1209)
                      ++.++|++|+||||+++.++.......  ..++.++.... ....+.+...++..+.+...   ..+..+..........
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g--~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKG--KKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAR   79 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            678999999999999999998876431  23444554322 12333344445544432111   1222333333333333


Q ss_pred             cCCeEEEEEeCCCc
Q 038494          258 KEKRVLIILDNIWK  271 (1209)
Q Consensus       258 ~~k~~LlvlDdv~~  271 (1209)
                      ....-++|+|..-.
T Consensus        80 ~~~~d~viiDt~g~   93 (173)
T cd03115          80 EENFDVVIVDTAGR   93 (173)
T ss_pred             hCCCCEEEEECccc
Confidence            22333566777543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.09  E-value=0.03  Score=64.36  Aligned_cols=51  Identities=12%  Similarity=0.217  Sum_probs=41.3

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD  211 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~  211 (1209)
                      ..|+||++.++.+...+..++  -|.|.|++|+|||++|+.++........|.
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            468899999999998886543  678999999999999999998765433443

>PTZ00035 Rad51 protein; Provisional

Probab=95.07  E-value=0.12  Score=58.00  Aligned_cols=91  Identities=19%  Similarity=0.213  Sum_probs=56.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh---c-ccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC---------CCChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME---D-KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL---------NDSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~---~-~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~---------~~~~~  246 (1209)
                      ..++.|+|.+|+|||+++..++-....   . ..-..++|++....++.+++ .++++.++.....         ....+
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~e  196 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNHE  196 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCHH
Confidence            578999999999999999998765431   0 11246789998887777774 4456665543211         11112


Q ss_pred             HHHH---HHHHHHhcCCeEEEEEeCCCc
Q 038494          247 HRAK---QLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       247 ~~~~---~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      +...   .+...+..++--|||+|-+..
T Consensus       197 ~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        197 HQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            2222   223333344567899998854

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.05  E-value=0.12  Score=54.73  Aligned_cols=52  Identities=15%  Similarity=0.229  Sum_probs=35.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ..++.|.|.+|+||||+|.+++.....+.  ..+++++...  +..++++.+ .+++
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e~--~~~~~~~~~-~~~g   75 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVSTQL--TTTEFIKQM-MSLG   75 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCCC--CHHHHHHHH-HHhC
Confidence            45899999999999999988777654322  3456666333  456666665 3344

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=95.03  E-value=0.18  Score=55.37  Aligned_cols=62  Identities=19%  Similarity=0.227  Sum_probs=41.6

Q ss_pred             chhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      .|+=+.+....+..++..+  +.|.|.|.+|+||||+|+.++......     .+.|.++...+..++.
T Consensus        46 ~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~~-----~~rV~~~~~l~~~Dli  107 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNWP-----CVRVNLDSHVSRIDLV  107 (327)
T ss_pred             CccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCCC-----eEEEEecCCCChhhcC
Confidence            3443444556677777543  468999999999999999999988632     2355555555554443

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.02  E-value=0.21  Score=55.72  Aligned_cols=99  Identities=23%  Similarity=0.290  Sum_probs=58.9

Q ss_pred             HHHHHHHHhCC----CceEEEEEcCCCChHHH-HHHHHHHHHhhcccCCEEEEEEcC-CCcCHHHHHHHHHHHhCCCCCC
Q 038494          168 FQDVVEALRND----KLNIIGVHGMGGVGKTT-LVKQIAKQVMEDKVFDKVVMAEVT-ENPDVQKIQDKLASDLDLNFDL  241 (1209)
Q Consensus       168 ~~~l~~~L~~~----~~~vi~I~G~~GiGKTt-La~~~~~~~~~~~~f~~~~wv~~s-~~~~~~~l~~~i~~~l~~~~~~  241 (1209)
                      ...+..++.++    +.++|+++|+.|+|||| ||+..++-..... =..+..|+.. -.....+-++..++-++.+...
T Consensus       187 l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v  265 (407)
T COG1419         187 LRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV  265 (407)
T ss_pred             HHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceEE
Confidence            44445555443    46899999999999965 5555554442222 2356666653 2345666667778888887665


Q ss_pred             CCChHHHHHHHHHHHhcCCeEEEEEeCCC
Q 038494          242 NDSKPHRAKQLCQRLTKEKRVLIILDNIW  270 (1209)
Q Consensus       242 ~~~~~~~~~~l~~~l~~~k~~LlvlDdv~  270 (1209)
                      ..+ ..........+. +. -+|.+|-+.
T Consensus       266 v~~-~~el~~ai~~l~-~~-d~ILVDTaG  291 (407)
T COG1419         266 VYS-PKELAEAIEALR-DC-DVILVDTAG  291 (407)
T ss_pred             ecC-HHHHHHHHHHhh-cC-CEEEEeCCC
Confidence            555 344444455554 23 456666654

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.01  E-value=0.16  Score=54.50  Aligned_cols=90  Identities=21%  Similarity=0.268  Sum_probs=57.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH-hCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD-LDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~-l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      .+++=|+|+.|.||||+|.+++-.....  -+.++|++.-+.++++++.. ++.. +..-........+....+...+..
T Consensus        60 g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~~~~  136 (279)
T COG0468          60 GRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEKLAR  136 (279)
T ss_pred             ceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHHHHH
Confidence            4688899999999999999988666533  34889999999999887644 4444 221111111113333333333331


Q ss_pred             ---CCeEEEEEeCCCcc
Q 038494          259 ---EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ---~k~~LlvlDdv~~~  272 (1209)
                         .+--|+|+|.+-..
T Consensus       137 ~~~~~i~LvVVDSvaa~  153 (279)
T COG0468         137 SGAEKIDLLVVDSVAAL  153 (279)
T ss_pred             hccCCCCEEEEecCccc
Confidence               23578999988543

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

Probab=94.99  E-value=0.014  Score=60.16  Aligned_cols=83  Identities=24%  Similarity=0.243  Sum_probs=52.6

Q ss_pred             cCCCCCcEEEecCc--ccc-cccccccCCCCCcEEeccCcccCCc---ccccCCCCCCEEEccCCCCCccch----hccC
Q 038494          564 EGTEDLKVLSLSGI--HFS-SLSSSLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPL----EIGQ  633 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~--~i~-~lp~~i~~l~~L~~L~l~~~~l~~l---~~i~~L~~L~~L~l~~~~~~~lp~----~i~~  633 (1209)
                      ..+++|+.|.++.|  ++. .++.....+++|++|++++|+++.+   ..+..+.+|..|++.+|..+.+-.    .+.-
T Consensus        62 P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~l  141 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLL  141 (260)
T ss_pred             CCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHH
Confidence            45667777777777  332 4444455567777777777776554   455667777777877776654421    2445


Q ss_pred             CCCCCEEeccCCC
Q 038494          634 LAQLQLLDLSNCS  646 (1209)
Q Consensus       634 L~~L~~L~l~~~~  646 (1209)
                      +++|.+|+-..+.
T Consensus       142 l~~L~~LD~~dv~  154 (260)
T KOG2739|consen  142 LPSLKYLDGCDVD  154 (260)
T ss_pred             hhhhccccccccC
Confidence            6778888766543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.99  E-value=0.075  Score=50.59  Aligned_cols=45  Identities=22%  Similarity=0.463  Sum_probs=35.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF  239 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~  239 (1209)
                      +|.|-|++|.||||+|+.+++...-+  |     +      +.-.+++++++..|.+.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----V------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----e------eccHHHHHHHHHcCCCH
Confidence            68999999999999999999887643  1     1      23457888888887653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.97  E-value=0.19  Score=54.55  Aligned_cols=90  Identities=20%  Similarity=0.230  Sum_probs=50.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH--HHHHHHHHHHhCCCCC---CCCChHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV--QKIQDKLASDLDLNFD---LNDSKPHRAKQLC  253 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~l~~~i~~~l~~~~~---~~~~~~~~~~~l~  253 (1209)
                      +.++|.++|++|+||||.+..++.....+  -..+.+++... +..  .+-++..++..+.+..   ...+.........
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l  147 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAI  147 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHH
Confidence            45799999999999999999999877643  23566676543 322  2334445555554321   1112222222222


Q ss_pred             HHHhcCCeEEEEEeCCCc
Q 038494          254 QRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~  271 (1209)
                      ........-++++|-.-.
T Consensus       148 ~~~~~~~~D~ViIDT~G~  165 (272)
T TIGR00064       148 QKAKARNIDVVLIDTAGR  165 (272)
T ss_pred             HHHHHCCCCEEEEeCCCC
Confidence            222223345788887644

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.94  E-value=0.11  Score=58.97  Aligned_cols=84  Identities=19%  Similarity=0.249  Sum_probs=46.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc--CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP--DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~--~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      ..++.++|++|+||||++..++........+ .+..++. +.+  .....++..++.++.+...    ......+...+.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~-~V~Lit~-Dt~R~aA~eQLk~yAe~lgvp~~~----~~~~~~l~~~l~  296 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGK-SVSLYTT-DNYRIAAIEQLKRYADTMGMPFYP----VKDIKKFKETLA  296 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEecc-cchhhhHHHHHHHHHHhcCCCeee----hHHHHHHHHHHH
Confidence            4689999999999999999999765332222 3333333 222  2233344445555554322    122334444444


Q ss_pred             cCCeEEEEEeCC
Q 038494          258 KEKRVLIILDNI  269 (1209)
Q Consensus       258 ~~k~~LlvlDdv  269 (1209)
                      +...-+||+|-.
T Consensus       297 ~~~~D~VLIDTa  308 (432)
T PRK12724        297 RDGSELILIDTA  308 (432)
T ss_pred             hCCCCEEEEeCC
Confidence            323345888843

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.90  E-value=0.047  Score=50.95  Aligned_cols=69  Identities=16%  Similarity=0.187  Sum_probs=40.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      .+-|.|.|.+|+||||+|.+++.....       -|+++++-..-.+++...-+...-..-   +.+..++.+-..+.+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~-------~~i~isd~vkEn~l~~gyDE~y~c~i~---DEdkv~D~Le~~m~~   75 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGL-------EYIEISDLVKENNLYEGYDEEYKCHIL---DEDKVLDELEPLMIE   75 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCC-------ceEehhhHHhhhcchhcccccccCccc---cHHHHHHHHHHHHhc
Confidence            356889999999999999999965543       377777644333333332222221111   114455555555554

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.89  E-value=0.15  Score=54.51  Aligned_cols=87  Identities=14%  Similarity=0.229  Sum_probs=54.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----------------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----------------  241 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----------------  241 (1209)
                      ...++.|+|.+|+|||++|.+++.....+  =..++|++..+.  ..++.+.+ ++++....+                 
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~   98 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGF   98 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccccc
Confidence            35789999999999999999997665432  357889988654  44555543 333322110                 


Q ss_pred             ---CCChHHHHHHHHHHHhcCCeEEEEEeCCC
Q 038494          242 ---NDSKPHRAKQLCQRLTKEKRVLIILDNIW  270 (1209)
Q Consensus       242 ---~~~~~~~~~~l~~~l~~~k~~LlvlDdv~  270 (1209)
                         ..........+.+.+.+.+.-++|+|.+.
T Consensus        99 ~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         99 EWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence               01113344555555554456689999876

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=94.85  E-value=0.12  Score=57.03  Aligned_cols=87  Identities=26%  Similarity=0.314  Sum_probs=61.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC-CChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN-DSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~l~~~l~~  258 (1209)
                      ..+|.|=|-+|+|||||..+++.+...+.   .+.+|+-.+  +..++ +--+++++.+.... -..+...+.+.+.+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEE--S~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEE--SLQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCc--CHHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            46899999999999999999999998653   667766544  33332 44466777544321 1113445667777777


Q ss_pred             CCeEEEEEeCCCcc
Q 038494          259 EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~  272 (1209)
                      .++-++|+|-+...
T Consensus       167 ~~p~lvVIDSIQT~  180 (456)
T COG1066         167 EKPDLVVIDSIQTL  180 (456)
T ss_pred             cCCCEEEEecccee
Confidence            78999999998654

>PRK06835 DNA replication protein DnaC; Validated

Probab=94.83  E-value=0.15  Score=56.93  Aligned_cols=75  Identities=23%  Similarity=0.271  Sum_probs=46.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      ..+.++|.+|+|||+||..+++....+.  ..++++++.+      +...+...-. .  ..   .+. ....+.+.  .
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~~~------l~~~l~~~~~-~--~~---~~~-~~~~~~l~--~  246 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTADE------LIEILREIRF-N--ND---KEL-EEVYDLLI--N  246 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEHHH------HHHHHHHHHh-c--cc---hhH-HHHHHHhc--c
Confidence            6799999999999999999999886542  3566666533      3333332111 0  00   111 11244453  3


Q ss_pred             eEEEEEeCCCcc
Q 038494          261 RVLIILDNIWKK  272 (1209)
Q Consensus       261 ~~LlvlDdv~~~  272 (1209)
                      -=|||+||+..+
T Consensus       247 ~DLLIIDDlG~e  258 (329)
T PRK06835        247 CDLLIIDDLGTE  258 (329)
T ss_pred             CCEEEEeccCCC
Confidence            358999999655

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.83  E-value=0.23  Score=56.53  Aligned_cols=90  Identities=17%  Similarity=0.141  Sum_probs=54.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc--cCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK--VFDKVVMAEVTEN-PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRL  256 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~--~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  256 (1209)
                      .++|.++|..|+||||.+..++.......  +-..+..+++..- ....+-++..++.++.+...... ..........+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~-~~~l~~~L~~~  252 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIES-FKDLKEEITQS  252 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCc-HHHHHHHHHHh
Confidence            46999999999999999999987765321  1234555555432 22333466666767765433333 22233333334


Q ss_pred             hcCCeEEEEEeCCCcc
Q 038494          257 TKEKRVLIILDNIWKK  272 (1209)
Q Consensus       257 ~~~k~~LlvlDdv~~~  272 (1209)
                      .  +.-+|++|.+...
T Consensus       253 ~--~~DlVLIDTaGr~  266 (388)
T PRK12723        253 K--DFDLVLVDTIGKS  266 (388)
T ss_pred             C--CCCEEEEcCCCCC
Confidence            2  4568888987543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.81  E-value=0.2  Score=55.83  Aligned_cols=90  Identities=22%  Similarity=0.279  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      ..++++++|+.|+||||++..++.....+.  ..+.+++...-. ...+-++..++.++.+.....+ ...+....+.+.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~d-p~dL~~al~~l~  281 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATS-PAELEEAVQYMT  281 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCC-HHHHHHHHHHHH
Confidence            357999999999999999999998765432  356677764322 3345566667777665433333 333444445554


Q ss_pred             c-CCeEEEEEeCCCc
Q 038494          258 K-EKRVLIILDNIWK  271 (1209)
Q Consensus       258 ~-~k~~LlvlDdv~~  271 (1209)
                      . +..-+|++|-.-.
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence            1 2346788887754

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.76  E-value=0.18  Score=51.68  Aligned_cols=94  Identities=17%  Similarity=0.212  Sum_probs=59.4

Q ss_pred             ccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ..++-|-++.++++.+..+-             +..+-|.++|++|.|||-.|++|+++-...  |     +.|-..   
T Consensus       176 y~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdac--f-----irvigs---  245 (435)
T KOG0729|consen  176 YSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDAC--F-----IRVIGS---  245 (435)
T ss_pred             cccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCce--E-----EeehhH---
Confidence            34555788888888877651             234568899999999999999999876532  3     222111   


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +-+++-    +|.       ....++++.+--+..|-++|.||.++..
T Consensus       246 elvqky----vge-------garmvrelf~martkkaciiffdeidai  282 (435)
T KOG0729|consen  246 ELVQKY----VGE-------GARMVRELFEMARTKKACIIFFDEIDAI  282 (435)
T ss_pred             HHHHHH----hhh-------hHHHHHHHHHHhcccceEEEEeeccccc
Confidence            111111    110       1345555665555567799999998754

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.76  E-value=0.16  Score=52.51  Aligned_cols=90  Identities=20%  Similarity=0.236  Sum_probs=49.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccC--------CEEEEEEcCCCcCHHHHHHHHHHHhCCC--------------
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVF--------DKVVMAEVTENPDVQKIQDKLASDLDLN--------------  238 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f--------~~~~wv~~s~~~~~~~l~~~i~~~l~~~--------------  238 (1209)
                      .++.|.|.+|+||||++.+++........|        ..++|++.....  .++.+.+.......              
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~--~~~~~rl~~~~~~~~~~~~~~~~~~~~~  110 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE--SQIARRLRALLQDYDDDANLFFVDLSNW  110 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H--HHHHHHHHHHHTTS-HHHHHHHHHH--E
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH--HHHHHHHHHHhcccCCccceEEeecccc
Confidence            588999999999999999999887653322        378888876653  23333332222111              


Q ss_pred             --------CCCCCChHHHHHHHHHHHhc-CCeEEEEEeCCCcc
Q 038494          239 --------FDLNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKK  272 (1209)
Q Consensus       239 --------~~~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~  272 (1209)
                              ...........+.+.+.+.+ ...-+||+|++...
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~  153 (193)
T PF13481_consen  111 GCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSL  153 (193)
T ss_dssp             -EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG
T ss_pred             ccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHH
Confidence                    00001113445666776665 45679999987654

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.71  E-value=0.11  Score=58.98  Aligned_cols=88  Identities=23%  Similarity=0.260  Sum_probs=55.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCC-ChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLND-SKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~-~~~~~~~~l~~~l~~  258 (1209)
                      ..++.|.|.+|+|||||+.+++......  -..++|++..+.  ..++ +.-+++++...+... ........+.+.+..
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~  156 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIEE  156 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHHh
Confidence            4689999999999999999999877643  356788876543  3333 223455554322110 001123445555554


Q ss_pred             CCeEEEEEeCCCcc
Q 038494          259 EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~  272 (1209)
                      .+.-+||+|.+...
T Consensus       157 ~~~~lVVIDSIq~l  170 (372)
T cd01121         157 LKPDLVIIDSIQTV  170 (372)
T ss_pred             cCCcEEEEcchHHh
Confidence            56778999998643

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=94.69  E-value=0.041  Score=64.10  Aligned_cols=49  Identities=24%  Similarity=0.403  Sum_probs=42.1

Q ss_pred             ccchhhHHHHHHHHHHHHh------CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          158 FEAFDSRMKLFQDVVEALR------NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+++|-++.+++|++.|.      ..+.+++.++|++|+||||||+.+++-.+.
T Consensus        75 F~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         75 FEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             hhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            3468899999999999883      455689999999999999999999987764

>PRK06547 hypothetical protein; Provisional

Probab=94.68  E-value=0.049  Score=54.57  Aligned_cols=35  Identities=26%  Similarity=0.351  Sum_probs=28.2

Q ss_pred             HHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          171 VVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       171 l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +...+......+|+|.|.+|.||||+|+.+++...
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            33445556678999999999999999999998753

>PRK10867 signal recognition particle protein; Provisional

Probab=94.57  E-value=0.19  Score=57.96  Aligned_cols=29  Identities=31%  Similarity=0.446  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ...+|.++|.+|+||||.|..++.....+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            35789999999999999999998876543

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.57  E-value=2.8  Score=47.30  Aligned_cols=58  Identities=26%  Similarity=0.371  Sum_probs=39.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC-CCcCHHHHHHHHHHHhCCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT-ENPDVQKIQDKLASDLDLNF  239 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s-~~~~~~~l~~~i~~~l~~~~  239 (1209)
                      ..+|-.+|.-|.||||-|..+++..+.+. + .+.-|++. ..+..-+-+++++++.+.+.
T Consensus       100 P~vImmvGLQGsGKTTt~~KLA~~lkk~~-~-kvllVaaD~~RpAA~eQL~~La~q~~v~~  158 (451)
T COG0541         100 PTVILMVGLQGSGKTTTAGKLAKYLKKKG-K-KVLLVAADTYRPAAIEQLKQLAEQVGVPF  158 (451)
T ss_pred             CeEEEEEeccCCChHhHHHHHHHHHHHcC-C-ceEEEecccCChHHHHHHHHHHHHcCCce
Confidence            56899999999999999999999887632 2 22223221 23344555677777776654

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=94.55  E-value=0.029  Score=53.45  Aligned_cols=22  Identities=45%  Similarity=0.892  Sum_probs=20.5

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |.|.|.+|+||||+|+++.+..
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999885

...

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.54  E-value=0.24  Score=57.51  Aligned_cols=88  Identities=17%  Similarity=0.192  Sum_probs=51.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      .++++++|++|+||||++..++........-..+..++..... ...+-++...+.++.+...... ..........+. 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~-~~~l~~~l~~~~-  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYD-PKELAKALEQLR-  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCC-HHhHHHHHHHhC-
Confidence            3589999999999999999988776511112456667664321 1223344445556655433333 222333333343 


Q ss_pred             CCeEEEEEeCCC
Q 038494          259 EKRVLIILDNIW  270 (1209)
Q Consensus       259 ~k~~LlvlDdv~  270 (1209)
                       ..-+|++|..-
T Consensus       299 -~~DlVlIDt~G  309 (424)
T PRK05703        299 -DCDVILIDTAG  309 (424)
T ss_pred             -CCCEEEEeCCC
Confidence             34678889763

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=94.53  E-value=0.051  Score=58.57  Aligned_cols=114  Identities=15%  Similarity=0.108  Sum_probs=62.9

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE---cCCCcCHHHHHHHHHHHhCC-CCCC------CCChH
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE---VTENPDVQKIQDKLASDLDL-NFDL------NDSKP  246 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~---~s~~~~~~~l~~~i~~~l~~-~~~~------~~~~~  246 (1209)
                      +.+...++|+|..|.||||+.+.++......   .+.+|+.   +.......    +++..... +...      ..+..
T Consensus       108 ~~~~~~~~i~g~~g~GKttl~~~l~~~~~~~---~G~i~~~g~~v~~~d~~~----ei~~~~~~~~q~~~~~r~~v~~~~  180 (270)
T TIGR02858       108 NNRVLNTLIISPPQCGKTTLLRDLARILSTG---ISQLGLRGKKVGIVDERS----EIAGCVNGVPQHDVGIRTDVLDGC  180 (270)
T ss_pred             CCCeeEEEEEcCCCCCHHHHHHHHhCccCCC---CceEEECCEEeecchhHH----HHHHHhcccccccccccccccccc
Confidence            3445688999999999999999998776532   2333332   11111112    22222211 1110      00001


Q ss_pred             HHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhh
Q 038494          247 HRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL  308 (1209)
Q Consensus       247 ~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v  308 (1209)
                      .....+...+....+-++++|.+...+.+..+...+.           .|..+|+||....+
T Consensus       181 ~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~-----------~G~~vI~ttH~~~~  231 (270)
T TIGR02858       181 PKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH-----------AGVSIIATAHGRDV  231 (270)
T ss_pred             hHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh-----------CCCEEEEEechhHH
Confidence            1223344444434678999999877655554433332           56779999987654

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=94.53  E-value=0.11  Score=56.87  Aligned_cols=86  Identities=17%  Similarity=0.174  Sum_probs=53.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      .+++-|+|..|+||||||.++.......  -..++|++..+.++..     .++.+|.+.+.     ....++....+..
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~e~  125 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIAEQ  125 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHHHH
Confidence            4699999999999999999999876543  4578999998887665     34555554322     1222333333333


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      -++.+.--++|+|-|-..
T Consensus       126 lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  126 LIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHTTSESEEEEE-CTT-
T ss_pred             HhhcccccEEEEecCccc
Confidence            344566678999998755

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=94.52  E-value=0.075  Score=51.48  Aligned_cols=76  Identities=18%  Similarity=0.246  Sum_probs=45.5

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeE
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRV  262 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~  262 (1209)
                      |.++|.+|+|||++|+.+++....     ...-+.++...+..++....--.-+...-....       +...+  .+..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~-------l~~a~--~~~~   67 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGP-------LVRAM--RKGG   67 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-C-------CCTTH--HEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccceeeeeeccccccccccc-------ccccc--ccee
Confidence            679999999999999999998832     244567777777776654332110000000000       11111  1679


Q ss_pred             EEEEeCCCcc
Q 038494          263 LIILDNIWKK  272 (1209)
Q Consensus       263 LlvlDdv~~~  272 (1209)
                      ++|+|++...
T Consensus        68 il~lDEin~a   77 (139)
T PF07728_consen   68 ILVLDEINRA   77 (139)
T ss_dssp             EEEESSCGG-
T ss_pred             EEEECCcccC
Confidence            9999999854

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=94.49  E-value=0.053  Score=55.42  Aligned_cols=52  Identities=23%  Similarity=0.383  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          164 RMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       164 R~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      +..+-...+++|.  ...++.+.|++|.|||.||.+.+-+.-....|+.++++.
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            3444556666665  456999999999999999999997765557888888874

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK04328 hypothetical protein; Provisional

Probab=94.48  E-value=0.17  Score=54.44  Aligned_cols=41  Identities=20%  Similarity=0.236  Sum_probs=32.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ...++.|.|.+|+|||+||.+++.....+  -..++|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCC
Confidence            35789999999999999999988775433  356788887663

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=94.45  E-value=1.1  Score=49.95  Aligned_cols=47  Identities=21%  Similarity=0.174  Sum_probs=33.8

Q ss_pred             EEEcCCCCHHHHHHHHHHHhCCCCC--CCcchHHHHHHHHHhCCChhHH
Q 038494          318 IFLIEVLSKEEALQFFEKIVGNSAK--ASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       318 ~~~l~~L~~~e~~~lf~~~~~~~~~--~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .+++++++.+|+..++.-......-  ....+...+++.--.+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            7899999999999999887652221  1334556667777779999644

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=94.44  E-value=0.074  Score=51.66  Aligned_cols=36  Identities=28%  Similarity=0.416  Sum_probs=28.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      ..+|.|+|.+|.||||||+++.+.....  -..+++++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~--g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFAR--GIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHT--TS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEec
Confidence            3589999999999999999999999865  23455664

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>TIGR00959 ffh signal recognition particle protein

Probab=94.41  E-value=0.23  Score=57.32  Aligned_cols=90  Identities=18%  Similarity=0.174  Sum_probs=48.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~~  255 (1209)
                      ..++.++|.+|+||||.|..++.....+..+ .+.-|++... ....+-++..++..+.+...   .....+......+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~  177 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEY  177 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHH
Confidence            5689999999999999999999886432212 3444444321 12233344455555544221   12223333344444


Q ss_pred             HhcCCeEEEEEeCCC
Q 038494          256 LTKEKRVLIILDNIW  270 (1209)
Q Consensus       256 l~~~k~~LlvlDdv~  270 (1209)
                      ......-+||+|-.-
T Consensus       178 ~~~~~~DvVIIDTaG  192 (428)
T TIGR00959       178 AKENGFDVVIVDTAG  192 (428)
T ss_pred             HHhcCCCEEEEeCCC
Confidence            432222377777664

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.41  E-value=0.085  Score=63.93  Aligned_cols=79  Identities=10%  Similarity=0.129  Sum_probs=60.4

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      +.....++|.++.++.|..++...  +.+.++|.+|+||||+|+.+++.... .+++.++|+.- ...+...+++.++.+
T Consensus        27 ~~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~~~~v~~~  102 (637)
T PRK13765         27 ERLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPKIRTVPAG  102 (637)
T ss_pred             cccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHHHHHHHHh
Confidence            344677899999888888877655  47889999999999999999987643 34677888766 344677777878776


Q ss_pred             hCC
Q 038494          235 LDL  237 (1209)
Q Consensus       235 l~~  237 (1209)
                      +|.
T Consensus       103 ~G~  105 (637)
T PRK13765        103 KGK  105 (637)
T ss_pred             cCH
Confidence            654

>PRK07667 uridine kinase; Provisional

Probab=94.38  E-value=0.066  Score=55.11  Aligned_cols=38  Identities=21%  Similarity=0.565  Sum_probs=29.8

Q ss_pred             HHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          169 QDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       169 ~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.+.+.+.  .++..+|+|.|.+|.||||+|+.+......
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44555554  344579999999999999999999988764

>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=94.38  E-value=0.021  Score=34.81  Aligned_cols=22  Identities=41%  Similarity=0.650  Sum_probs=16.2

Q ss_pred             CCcEEEecCcccccccccccCC
Q 038494          568 DLKVLSLSGIHFSSLSSSLGHL  589 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~i~~l  589 (1209)
                      +|++||+++|.++.+|++|++|
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            4788888888888888776543

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 ....

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=94.37  E-value=0.073  Score=53.53  Aligned_cols=25  Identities=40%  Similarity=0.477  Sum_probs=22.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|.|.|.+|.||||+|+.+++....
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i   26 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGL   26 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999999544

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

Probab=94.37  E-value=0.024  Score=58.59  Aligned_cols=102  Identities=24%  Similarity=0.283  Sum_probs=59.5

Q ss_pred             CCCCCcEEEecCcccccccccccCCCCCcEEeccCcc--c-CCc-ccccCCCCCCEEEccCCCCCccc--hhccCCCCCC
Q 038494          565 GTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQ--L-EDV-AAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQ  638 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~--l-~~l-~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~  638 (1209)
                      .+..|..|++.+..++.+- .+..|++|++|.++.|.  + ..+ -..-++++|++|++++|+++.+.  ....++.+|.
T Consensus        41 ~~~~le~ls~~n~gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~  119 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLK  119 (260)
T ss_pred             cccchhhhhhhccceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchh
Confidence            4455555556655555432 24467788888888883  2 233 33445588888888888765321  2245667777


Q ss_pred             EEeccCCCCCc--ccCchhhcCCCCCcEEEC
Q 038494          639 LLDLSNCSSLV--VIAPNVISKFSRLEELYM  667 (1209)
Q Consensus       639 ~L~l~~~~~l~--~~~~~~l~~L~~L~~L~l  667 (1209)
                      .|++++|....  ..-...+.-+++|..|+-
T Consensus       120 ~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~  150 (260)
T KOG2739|consen  120 SLDLFNCSVTNLDDYREKVFLLLPSLKYLDG  150 (260)
T ss_pred             hhhcccCCccccccHHHHHHHHhhhhccccc
Confidence            78887764332  222223445677777654

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.36  E-value=0.12  Score=56.36  Aligned_cols=50  Identities=20%  Similarity=0.192  Sum_probs=35.8

Q ss_pred             ccchhhHHHHHHHHHHHHh---------C---CCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          158 FEAFDSRMKLFQDVVEALR---------N---DKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---------~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +.++.|-.+.++-|.++..         .   ..=+-|..+|++|.|||-||++||.+-...
T Consensus       211 W~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tT  272 (491)
T KOG0738|consen  211 WDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTT  272 (491)
T ss_pred             hHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCe
Confidence            4456666666666665543         1   123568899999999999999999987743

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.35  E-value=0.42  Score=56.70  Aligned_cols=179  Identities=18%  Similarity=0.200  Sum_probs=94.6

Q ss_pred             ccchhhHHHHH---HHHHHHHhCCC---------ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLF---QDVVEALRNDK---------LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~---~~l~~~L~~~~---------~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ..++.|.++.+   .++++.|.++.         .+-|.++|++|.|||.||++++-+..+-  |     ...|...   
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~---  218 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSD---  218 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchh---
Confidence            44556766554   45555665432         3567899999999999999999887763  2     2222211   


Q ss_pred             HHHHHHHHHh-CCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcccc------c----ccc
Q 038494          226 KIQDKLASDL-DLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR------K----QDL  294 (1209)
Q Consensus       226 ~l~~~i~~~l-~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~------~----~~~  294 (1209)
                           ..+.+ +..       ...++.+...-++..+++|++|.++....-+-..  ...+++.+.      +    .+.
T Consensus       219 -----FVemfVGvG-------AsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g--~GggnderEQTLNQlLvEmDGF~  284 (596)
T COG0465         219 -----FVEMFVGVG-------ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAG--LGGGNDEREQTLNQLLVEMDGFG  284 (596)
T ss_pred             -----hhhhhcCCC-------cHHHHHHHHHhhccCCCeEEEehhhhcccccCCC--CCCCchHHHHHHHHHHhhhccCC
Confidence                 01111 111       4456666666655678999999988663322221  112221110      0    011


Q ss_pred             --CCcEEEEeccchhhhccc----CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          295 --RRRTIILTSRSKHLLTND----MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       295 --~~s~ilvTtR~~~v~~~~----~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                        .|-.|+-.|-..+|...+    ..-...+.++.-+...-.++++-++....-.++ .+.. .|++.+-|.-.
T Consensus       285 ~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~-Vdl~-~iAr~tpGfsG  356 (596)
T COG0465         285 GNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAED-VDLK-KIARGTPGFSG  356 (596)
T ss_pred             CCCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCc-CCHH-HHhhhCCCccc
Confidence              233333344444454222    233456667666667777777766653322221 1122 37777766543

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=94.29  E-value=0.62  Score=50.49  Aligned_cols=129  Identities=12%  Similarity=0.128  Sum_probs=73.0

Q ss_pred             HHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhc------------ccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          168 FQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMED------------KVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       168 ~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~------------~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      -+.+...+..++. ....++|+.|+||+++|..++...-..            .|.|..+..+....             
T Consensus         6 ~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~-------------   72 (290)
T PRK05917          6 WEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKG-------------   72 (290)
T ss_pred             HHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCC-------------
Confidence            4566777766554 567799999999999999999877432            13332211111110             


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCcc--cCccccCCCCCCCCccccccccCCcEEEEeccc-hh
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKK--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-KH  307 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-~~  307 (1209)
                             ..-..+.++.+.+.+.    .+++-++|+|+++..  +.+..+...+-...        .++.+|++|.+ ..
T Consensus        73 -------~~I~idqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp--------~~~~fiL~~~~~~~  137 (290)
T PRK05917         73 -------RLHSIETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPP--------QHGVIILTSAKPQR  137 (290)
T ss_pred             -------CcCcHHHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCC--------CCeEEEEEeCChhh
Confidence                   0011445555555554    245678899999876  34555433332222        45555555555 44


Q ss_pred             hhcccCCcceEEEcCCC
Q 038494          308 LLTNDMNSQKIFLIEVL  324 (1209)
Q Consensus       308 v~~~~~~~~~~~~l~~L  324 (1209)
                      +..+.......+.+.++
T Consensus       138 ll~TI~SRcq~~~~~~~  154 (290)
T PRK05917        138 LPPTIRSRSLSIHIPME  154 (290)
T ss_pred             CcHHHHhcceEEEccch
Confidence            44333445567777665

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.29  E-value=0.26  Score=53.68  Aligned_cols=45  Identities=20%  Similarity=0.138  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ....+|+|.|..|+||||+|+.+..-......-..+..++...-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            345799999999999999998887655421001235555555433

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.26  E-value=0.18  Score=54.51  Aligned_cols=39  Identities=23%  Similarity=0.395  Sum_probs=30.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ..++.|.|.+|+|||++|.+++.....+  =..+++++...
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee   74 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVES   74 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecC
Confidence            4689999999999999999998765432  24677888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=94.22  E-value=0.14  Score=52.61  Aligned_cols=44  Identities=18%  Similarity=0.194  Sum_probs=32.0

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      +.|.|.+|+|||++|.+++.....+  =..++|++..+  +..++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCC--CHHHHHHH
Confidence            6799999999999999998876532  24577887654  34444443

A related protein is found in archaea.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=94.21  E-value=0.042  Score=45.49  Aligned_cols=23  Identities=43%  Similarity=0.749  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999885

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

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

Probab=94.15  E-value=0.16  Score=48.41  Aligned_cols=62  Identities=15%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             ccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEcc
Q 038494          557 EISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR  620 (1209)
Q Consensus       557 ~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~  620 (1209)
                      .+....|.+++.|+.+.+..+ +..++. .+..+.+|+.+.+.+ .+..+  ..+..+.+|+.+++.
T Consensus        25 ~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~   89 (129)
T PF13306_consen   25 KIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIP   89 (129)
T ss_dssp             EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEET
T ss_pred             EeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccccccccccccC
Confidence            344444455555555555442 333332 344444445554433 22222  233334444444443

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=94.12  E-value=0.25  Score=51.91  Aligned_cols=41  Identities=22%  Similarity=0.217  Sum_probs=28.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      +|+|.|.+|.||||+|+.+.........=..+..++...-+
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            48999999999999999999887531111235556555443

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.04  E-value=0.22  Score=51.70  Aligned_cols=97  Identities=27%  Similarity=0.390  Sum_probs=58.2

Q ss_pred             HHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCC------CCCC
Q 038494          172 VEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLASDLDLNF------DLND  243 (1209)
Q Consensus       172 ~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~------~~~~  243 (1209)
                      ++.+.. .+...+.|.|.+|+|||+|+..+++....    +.++++.+.+. ..+.++.+++...-....      ...+
T Consensus         6 ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~~----d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~   81 (215)
T PF00006_consen    6 IDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQDA----DVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDE   81 (215)
T ss_dssp             HHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHCTT----TEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS
T ss_pred             eccccccccCCEEEEEcCcccccchhhHHHHhcccc----cceeeeeccccchhHHHHHHHHhhcccccccccccccchh
Confidence            444441 23357899999999999999999998853    34577777765 356666666643311110      1111


Q ss_pred             ChHH------HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          244 SKPH------RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       244 ~~~~------~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ....      ..-.+-+++. ++++.|+++||+...
T Consensus        82 ~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr~  117 (215)
T PF00006_consen   82 PPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTRW  117 (215)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHHH
T ss_pred             hHHHHhhhhccchhhhHHHhhcCCceeehhhhhHHH
Confidence            1111      1122334443 489999999998543

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=94.01  E-value=0.41  Score=51.16  Aligned_cols=94  Identities=22%  Similarity=0.209  Sum_probs=59.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh--cccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC-------CCCCCh---
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME--DKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF-------DLNDSK---  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~--~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~-------~~~~~~---  245 (1209)
                      +...+.|.|-+|+|||+|+..+++....  +.+-+.++++-+.+.. ...++++.+.+.-....       .+++..   
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            3467899999999999999999877641  2224678888887764 46666666654321110       111110   


Q ss_pred             --HHHHHHHHHHHhc--CCeEEEEEeCCCcc
Q 038494          246 --PHRAKQLCQRLTK--EKRVLIILDNIWKK  272 (1209)
Q Consensus       246 --~~~~~~l~~~l~~--~k~~LlvlDdv~~~  272 (1209)
                        ....-.+-+++..  ++++|+++||+..-
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence              1122345566652  68999999998764

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.98  E-value=0.37  Score=55.25  Aligned_cols=87  Identities=17%  Similarity=0.208  Sum_probs=50.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..+|+++|..|+||||++..++...........+.++.... .....+-+...++.++.+........+ .......+. 
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~d-l~~al~~l~-  268 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIAD-LQLMLHELR-  268 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHH-HHHHHHHhc-
Confidence            46999999999999999998887643222233444444332 223444455666777766543333222 233334443 


Q ss_pred             CCeEEEEEeCC
Q 038494          259 EKRVLIILDNI  269 (1209)
Q Consensus       259 ~k~~LlvlDdv  269 (1209)
                      ++ -++++|-.
T Consensus       269 ~~-d~VLIDTa  278 (420)
T PRK14721        269 GK-HMVLIDTV  278 (420)
T ss_pred             CC-CEEEecCC
Confidence            23 45666764

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.95  E-value=0.2  Score=52.69  Aligned_cols=146  Identities=15%  Similarity=0.158  Sum_probs=78.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc--CC--CcCHHHHHHHHHHHhCCCCCC-------CCChHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV--TE--NPDVQKIQDKLASDLDLNFDL-------NDSKPH  247 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~--s~--~~~~~~l~~~i~~~l~~~~~~-------~~~~~~  247 (1209)
                      +..+++|+|.+|+||||+++.+..-....  .+.++|-.-  ..  .....+-..++++.++.....       -.....
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt--~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT--SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC--CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            34689999999999999999998776643  333333211  11  222344455666666644311       111122


Q ss_pred             HHHHHHHHHhcCCeEEEEEeCCCcccCc---cccCCCCCCCCccccccccCCcEEEEeccchhhhcccCCcceEEEcCCC
Q 038494          248 RAKQLCQRLTKEKRVLIILDNIWKKLGL---EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVL  324 (1209)
Q Consensus       248 ~~~~l~~~l~~~k~~LlvlDdv~~~~~~---~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~~~~~l~~L  324 (1209)
                      +.-.+.+.+. -++-++|.|.--+.-+.   ..+...+.+      ++...|-..+..|.+-.++.+......+..+...
T Consensus       116 QRi~IARALa-l~P~liV~DEpvSaLDvSiqaqIlnLL~d------lq~~~~lt~lFIsHDL~vv~~isdri~VMy~G~i  188 (268)
T COG4608         116 QRIGIARALA-LNPKLIVADEPVSALDVSVQAQILNLLKD------LQEELGLTYLFISHDLSVVRYISDRIAVMYLGKI  188 (268)
T ss_pred             hhHHHHHHHh-hCCcEEEecCchhhcchhHHHHHHHHHHH------HHHHhCCeEEEEEEEHHhhhhhcccEEEEecCce
Confidence            2223445554 58899999997665321   111111110      0111477788889888777543333333333332


Q ss_pred             -CHHHHHHHH
Q 038494          325 -SKEEALQFF  333 (1209)
Q Consensus       325 -~~~e~~~lf  333 (1209)
                       ....+.++|
T Consensus       189 VE~g~~~~~~  198 (268)
T COG4608         189 VEIGPTEEVF  198 (268)
T ss_pred             eEecCHHHHh
Confidence             333344444

>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=93.94  E-value=0.63  Score=44.85  Aligned_cols=113  Identities=16%  Similarity=0.275  Sum_probs=69.7

Q ss_pred             ChhhH-HHHHHHHHHHHHHHHHHHHHHHhhhhHhhHHHHHHHHHHHHHHHHHHHHHhchhHHHHhhccccchHHHHHHHH
Q 038494            1 MAADL-VSTTFSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLN   79 (1209)
Q Consensus         1 ma~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~   79 (1209)
                      |++.+ +++|++.+++.+...+....-+    ...       -+.-++.|.++++.+..++++.+.-....+..-+.-++
T Consensus         1 ~~~eL~~gaalG~~~~eLlk~v~~~~~k----~~~-------fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e   69 (147)
T PF05659_consen    1 PIAELVGGAALGAVFGELLKAVIDASKK----SLS-------FKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIE   69 (147)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHh-------hhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHH
Confidence            34444 4445555666666555443322    222       25556677777778888887777554444555577788


Q ss_pred             HHHHHHHhhhchhhhhhhhhhcccccccccCCcchhhhhHHHHHHHHHHHHhhh
Q 038494           80 NVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRYKLSKQAAKAAEAAASLV  133 (1209)
Q Consensus        80 ~~~~~~~d~~~ed~ld~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~  133 (1209)
                      ++.+...++  +++++.+...++       .++...++.+++|+++.+.+....
T Consensus        70 ~L~~~L~~g--~~LV~k~sk~~r-------~n~~kk~~y~~Ki~~le~~l~~f~  114 (147)
T PF05659_consen   70 RLKELLEKG--KELVEKCSKVRR-------WNLYKKPRYARKIEELEESLRRFI  114 (147)
T ss_pred             HHHHHHHHH--HHHHHHhccccH-------HHHHhhHhHHHHHHHHHHHHHHHh
Confidence            899999999  888876543321       124445566778888777766654

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 [].

>cd01131 PilT Pilus retraction ATPase PilT

Probab=93.93  E-value=0.058  Score=55.75  Aligned_cols=109  Identities=10%  Similarity=0.106  Sum_probs=55.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      ..|.|.|+.|.||||++..+.......  ....++.--.. ++.... ...+..+-....    ......+.+...+.. 
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~--~~~~i~t~e~~~E~~~~~-~~~~i~q~~vg~----~~~~~~~~i~~aLr~-   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN--KTHHILTIEDPIEFVHES-KRSLINQREVGL----DTLSFENALKAALRQ-   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc--CCcEEEEEcCCccccccC-ccceeeecccCC----CccCHHHHHHHHhcC-
Confidence            478999999999999999887766432  23333322111 110000 001111100000    112233445555553 


Q ss_pred             CeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhh
Q 038494          260 KRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL  308 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v  308 (1209)
                      .+=.|++|++.+.+.+........           .|..++.|+....+
T Consensus        74 ~pd~ii~gEird~e~~~~~l~~a~-----------~G~~v~~t~Ha~~~  111 (198)
T cd01131          74 DPDVILVGEMRDLETIRLALTAAE-----------TGHLVMSTLHTNSA  111 (198)
T ss_pred             CcCEEEEcCCCCHHHHHHHHHHHH-----------cCCEEEEEecCCcH
Confidence            567999999987655443322211           45557777765543

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK05439 pantothenate kinase; Provisional

Probab=93.91  E-value=0.48  Score=52.01  Aligned_cols=45  Identities=22%  Similarity=0.180  Sum_probs=30.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ....+|+|.|.+|+||||+|+.+.........-..+.-++...-+
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFL  128 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccc
Confidence            345689999999999999999998765431111234445554433

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.91  E-value=0.2  Score=50.73  Aligned_cols=28  Identities=29%  Similarity=0.509  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+|.|+|++|+||||+|+.++.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4569999999999999999999988764

>CHL00206 ycf2 Ycf2; Provisional

Probab=93.88  E-value=0.32  Score=64.30  Aligned_cols=27  Identities=33%  Similarity=0.279  Sum_probs=23.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+-|.++|++|+|||-||+++|.+..+
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            456889999999999999999988754

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=93.86  E-value=0.053  Score=58.86  Aligned_cols=90  Identities=18%  Similarity=0.323  Sum_probs=50.3

Q ss_pred             HHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHH
Q 038494          169 QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHR  248 (1209)
Q Consensus       169 ~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~  248 (1209)
                      ..+++.+...+ +-+.++|++|+|||++++.......... | .+.-++.+...+...+++.+-..+.......-. .  
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~~~~-~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~g-P--   96 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLDSDK-Y-LVITINFSAQTTSNQLQKIIESKLEKRRGRVYG-P--   96 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCSTTCC-E-EEEEEES-TTHHHHHHHHCCCTTECECTTEEEE-E--
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccCCccc-c-ceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCC-C--
Confidence            45555555544 4568999999999999999876544321 1 234456666555554443222222111000000 0  


Q ss_pred             HHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          249 AKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       249 ~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                              ..+|+.++.+||+.-.
T Consensus        97 --------~~~k~lv~fiDDlN~p  112 (272)
T PF12775_consen   97 --------PGGKKLVLFIDDLNMP  112 (272)
T ss_dssp             --------ESSSEEEEEEETTT-S
T ss_pred             --------CCCcEEEEEecccCCC
Confidence                    1368999999998654

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.83  E-value=0.32  Score=56.77  Aligned_cols=88  Identities=17%  Similarity=0.173  Sum_probs=50.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..+++++|+.|+||||.+..++.....+.....+..++... .....+-++...+..+.+........+... ....+. 
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~-aL~~L~-  333 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRL-ALSELR-  333 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHH-HHHhcc-
Confidence            36999999999999999999998765432222455565433 223444455566666655432222122222 223333 


Q ss_pred             CCeEEEEEeCCC
Q 038494          259 EKRVLIILDNIW  270 (1209)
Q Consensus       259 ~k~~LlvlDdv~  270 (1209)
                      ++ ..+++|..-
T Consensus       334 d~-d~VLIDTaG  344 (484)
T PRK06995        334 NK-HIVLIDTIG  344 (484)
T ss_pred             CC-CeEEeCCCC
Confidence            23 466777654

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.76  E-value=0.049  Score=49.80  Aligned_cols=24  Identities=42%  Similarity=0.710  Sum_probs=21.3

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      |-|+|.+|+|||++|+.++.+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~   24 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLK   24 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999988764

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=93.75  E-value=0.057  Score=52.64  Aligned_cols=24  Identities=42%  Similarity=0.581  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +|.+.|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            588999999999999999976653

...

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=93.72  E-value=0.39  Score=55.62  Aligned_cols=93  Identities=23%  Similarity=0.335  Sum_probs=60.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC------CCCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN------FDLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~------~~~~~~~------  245 (1209)
                      +...++|+|.+|+|||||+.++++..... +-+.++++-+.+.. .+.++++.+...-...      ...+...      
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            45689999999999999999999887753 56777888777654 4556666555432111      0111111      


Q ss_pred             HHHHHHHHHHHh-c-CCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-K-EKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~-~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. + ++++|+++||+..-
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~DslTR~  249 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccchHH
Confidence            122234556664 2 79999999999654

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.72  E-value=0.5  Score=58.01  Aligned_cols=88  Identities=16%  Similarity=0.201  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      ..+|+++|+.|+||||.+..++...........+..++... .....+-++...+.++.+.....+ ...+....+.+. 
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~-~~~l~~al~~~~-  262 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKD-AADLRFALAALG-  262 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCC-HHHHHHHHHHhc-
Confidence            46999999999999999999987764322223555555432 222455667777777766544333 333444455554 


Q ss_pred             CCeEEEEEeCCC
Q 038494          259 EKRVLIILDNIW  270 (1209)
Q Consensus       259 ~k~~LlvlDdv~  270 (1209)
                      ++ -+|++|-.-
T Consensus       263 ~~-D~VLIDTAG  273 (767)
T PRK14723        263 DK-HLVLIDTVG  273 (767)
T ss_pred             CC-CEEEEeCCC
Confidence            33 478888776

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=93.72  E-value=0.19  Score=49.13  Aligned_cols=25  Identities=24%  Similarity=0.664  Sum_probs=22.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|.|+|.+|.||||+|+.+......
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            5789999999999999999988753

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>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=93.70  E-value=0.027  Score=34.39  Aligned_cols=21  Identities=19%  Similarity=0.426  Sum_probs=13.4

Q ss_pred             CCCEEEccCCCCCccchhccC
Q 038494          613 KLEILSFRYSDIKQLPLEIGQ  633 (1209)
Q Consensus       613 ~L~~L~l~~~~~~~lp~~i~~  633 (1209)
                      +|++||+++|+++.+|.++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            466677777766666666544

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 ....

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=93.69  E-value=0.059  Score=55.62  Aligned_cols=25  Identities=48%  Similarity=0.751  Sum_probs=23.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|+|.|.+|.||||+|+.++.....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999998875

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=93.69  E-value=0.25  Score=53.25  Aligned_cols=96  Identities=11%  Similarity=0.125  Sum_probs=54.1

Q ss_pred             HHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC------C
Q 038494          170 DVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN------D  243 (1209)
Q Consensus       170 ~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~------~  243 (1209)
                      +..+++...+..+|.|.|.+|.|||||+..+.+....+  .. ++.+ ..+..+..+  ...++..+.+....      .
T Consensus        94 ~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~~-~~VI-~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Ch  167 (290)
T PRK10463         94 RNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--VP-CAVI-EGDQQTVND--AARIRATGTPAIQVNTGKGCH  167 (290)
T ss_pred             HHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--CC-EEEE-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCc
Confidence            34455556788999999999999999999999887643  22 2222 122122222  11233333321111      1


Q ss_pred             ChHHHHHHHHHHHhcCCeEEEEEeCCCc
Q 038494          244 SKPHRAKQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       244 ~~~~~~~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      .....+......|.....-++|++++-+
T Consensus       168 l~a~mv~~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        168 LDAQMIADAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             CcHHHHHHHHHHHhhcCCcEEEEECCCC
Confidence            1133344445555433446778899875

>PF13245 AAA_19: Part of AAA domain

Probab=93.69  E-value=0.21  Score=42.15  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=18.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +.+++.|.|.+|.|||+++.+.....
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34678889999999995554444443

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.66  E-value=0.48  Score=58.79  Aligned_cols=103  Identities=18%  Similarity=0.230  Sum_probs=67.4

Q ss_pred             chhhHHHHHHHHHHHHhC------C--CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN------D--KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~------~--~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      .++|.++.+..|.+++..      +  ...++.+.|+.|+|||.||++++.-.-..  .+..+-+++++-      .+ +
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgs--e~~~IriDmse~------~e-v  633 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGS--EENFIRLDMSEF------QE-V  633 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCC--ccceEEechhhh------hh-h
Confidence            466888888888888762      1  34678899999999999999999887532  344555555442      12 3


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL  273 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~  273 (1209)
                      .+..+.+..-..  .+....+-+.++...-.+|+||||+..+
T Consensus       634 skligsp~gyvG--~e~gg~LteavrrrP~sVVLfdeIEkAh  673 (898)
T KOG1051|consen  634 SKLIGSPPGYVG--KEEGGQLTEAVKRRPYSVVLFEEIEKAH  673 (898)
T ss_pred             hhccCCCccccc--chhHHHHHHHHhcCCceEEEEechhhcC
Confidence            333333221111  2344567777775555788899999773

>PRK08233 hypothetical protein; Provisional

Probab=93.59  E-value=0.063  Score=54.90  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|.|.+|+||||+|+.++....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998764

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=93.58  E-value=0.27  Score=54.69  Aligned_cols=37  Identities=16%  Similarity=0.365  Sum_probs=26.7

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      +++.|++|.||||+++.+.+.......+ .+.+++..+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~-~v~~~~~Dd   38 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGW-AVAVITYDD   38 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCC-eEEEEcccc
Confidence            6799999999999999999887632222 345555443

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=93.57  E-value=0.17  Score=52.80  Aligned_cols=60  Identities=18%  Similarity=0.333  Sum_probs=38.5

Q ss_pred             HHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHH
Q 038494          168 FQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       168 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      ..++++.+.  ..+..+|+|.|++|+|||||.-.+....+.+.+=-.++=|+-|.+++--.+
T Consensus        15 ~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   15 ARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcc
Confidence            345555554  346789999999999999999999998886544445666666666654333

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=93.54  E-value=0.13  Score=51.67  Aligned_cols=49  Identities=27%  Similarity=0.360  Sum_probs=34.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..+|+|-||=|+||||||+.+++....+     ++.-.+.+++-+...+.++-+
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~-----~~~E~vednp~L~~FY~d~~~   52 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK-----VFYELVEDNPFLDLFYEDPER   52 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc-----eeeecccCChHHHHHHHhHHH
Confidence            4689999999999999999999988743     233445555445555554443

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=93.50  E-value=0.15  Score=54.20  Aligned_cols=89  Identities=16%  Similarity=0.232  Sum_probs=52.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC--------------CC----
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF--------------DL----  241 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~--------------~~----  241 (1209)
                      ..++.|.|.+|+|||++|.+++.....+. =..++|++..++.  .++.+.+. .++.+.              ..    
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~-ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKNF-GEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHH-T--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGST
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhhc-CCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccccc
Confidence            46999999999999999999886664320 1357888876543  44444432 333210              00    


Q ss_pred             --CCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          242 --NDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       242 --~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        ..+.......+.+.+...+...+|+|.+...
T Consensus        95 ~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l  127 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIEELKPDRVVIDSLSAL  127 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHH
T ss_pred             ccccCHHHHHHHHHHHHHhcCCCEEEEECHHHH
Confidence              1233444555555554334578889986543

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PRK05480 uridine/cytidine kinase; Provisional

Probab=93.50  E-value=0.074  Score=55.73  Aligned_cols=27  Identities=41%  Similarity=0.592  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+..+|+|.|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999999876

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=93.45  E-value=0.14  Score=48.31  Aligned_cols=28  Identities=29%  Similarity=0.279  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+|.+.|.-|.||||+++.+++....
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3458999999999999999999988654

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.42  E-value=0.13  Score=60.87  Aligned_cols=57  Identities=26%  Similarity=0.327  Sum_probs=43.6

Q ss_pred             ccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc
Q 038494          158 FEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV  218 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  218 (1209)
                      ..+++-..+.++++.+||..     ...+++.+.|++|+||||.++.++++..    |+.+=|.+.
T Consensus        18 ~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~np   79 (519)
T PF03215_consen   18 LDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWINP   79 (519)
T ss_pred             HHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecCC
Confidence            44555556678888888873     2357899999999999999999998864    666778653

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.42  E-value=0.79  Score=50.15  Aligned_cols=28  Identities=39%  Similarity=0.374  Sum_probs=24.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .+-|.++|++|.|||-+|++++.+....
T Consensus       127 ~kGiLL~GPpG~GKTmlAKA~Akeaga~  154 (386)
T KOG0737|consen  127 PKGILLYGPPGTGKTMLAKAIAKEAGAN  154 (386)
T ss_pred             CccceecCCCCchHHHHHHHHHHHcCCC
Confidence            4568899999999999999999887643

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=93.40  E-value=0.058  Score=58.22  Aligned_cols=26  Identities=35%  Similarity=0.406  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.|.|.|.+|.||||+|+++......
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            47899999999999999999988775

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK03839 putative kinase; Provisional

Probab=93.40  E-value=0.069  Score=54.44  Aligned_cols=24  Identities=46%  Similarity=0.682  Sum_probs=22.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999999875

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=93.40  E-value=0.15  Score=55.02  Aligned_cols=56  Identities=23%  Similarity=0.210  Sum_probs=42.9

Q ss_pred             ccccchhhHHHHHHH---HHHHHhCC--CceEEEEEcCCCChHHHHHHHHHHHHhhcccCC
Q 038494          156 KDFEAFDSRMKLFQD---VVEALRND--KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD  211 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~---l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~  211 (1209)
                      ....+|||..+..+.   +++++.++  ..+.|.|+|++|.|||+||..+++..-.+-+|-
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~   96 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFV   96 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCce
Confidence            345688887655443   66666654  357899999999999999999999998766663

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=93.38  E-value=0.11  Score=57.03  Aligned_cols=53  Identities=30%  Similarity=0.387  Sum_probs=38.0

Q ss_pred             ccchhhHHHHHHH---HHHHHhCCC--ceEEEEEcCCCChHHHHHHHHHHHHhhcccC
Q 038494          158 FEAFDSRMKLFQD---VVEALRNDK--LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF  210 (1209)
Q Consensus       158 ~~~~~gR~~~~~~---l~~~L~~~~--~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f  210 (1209)
                      ..++||..+..+.   +++++...+  .+.|.+.|++|.|||+||..+++....+-+|
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            5688987665444   666666554  5899999999999999999999998866444

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=93.36  E-value=0.19  Score=61.31  Aligned_cols=77  Identities=12%  Similarity=0.142  Sum_probs=53.2

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      -...++|.++.+..+...+....  .+.++|++|+||||+|+.+++..... .|..++++.- ...+...+++.++..++
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l~~~-~~~~~~~~~n-~~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELLPDE-ELEDILVYPN-PEDPNMPRIVEVPAGEG   91 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHcCch-hheeEEEEeC-CCCCchHHHHHHHHhhc
Confidence            35678899988888887776553  56699999999999999999877543 3333333322 22345556777776665


Q ss_pred             C
Q 038494          237 L  237 (1209)
Q Consensus       237 ~  237 (1209)
                      .
T Consensus        92 ~   92 (608)
T TIGR00764        92 R   92 (608)
T ss_pred             h
Confidence            3

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR00235 udk uridine kinase

Probab=93.34  E-value=0.081  Score=55.28  Aligned_cols=28  Identities=43%  Similarity=0.544  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +...+|+|+|++|+||||||+.++....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457999999999999999999997764

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PTZ00301 uridine kinase; Provisional

Probab=93.33  E-value=0.081  Score=54.83  Aligned_cols=26  Identities=35%  Similarity=0.719  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|.|.+|.||||+|+.+.+...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHH
Confidence            46899999999999999999988764

>PRK06762 hypothetical protein; Provisional

Probab=93.33  E-value=0.077  Score=53.28  Aligned_cols=24  Identities=38%  Similarity=0.661  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            588999999999999999998776

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=93.31  E-value=0.12  Score=59.51  Aligned_cols=46  Identities=22%  Similarity=0.167  Sum_probs=35.1

Q ss_pred             chhhHHHHHHHHHHHHhC-------C---------CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALRN-------D---------KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~-------~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.+..++.+..++.+       .         ....|.++|++|+|||++|+.++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            478998888877655421       0         125689999999999999999987654

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=93.29  E-value=0.27  Score=46.31  Aligned_cols=26  Identities=31%  Similarity=0.479  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+|.|.|.+|.||||+++++.+...-
T Consensus        13 ~~i~vmGvsGsGKSTigk~L~~~l~~   38 (191)
T KOG3354|consen   13 YVIVVMGVSGSGKSTIGKALSEELGL   38 (191)
T ss_pred             eeEEEEecCCCChhhHHHHHHHHhCC
Confidence            48999999999999999999998874

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=93.27  E-value=0.7  Score=49.21  Aligned_cols=41  Identities=27%  Similarity=0.345  Sum_probs=31.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ....+.|.|.+|+|||++|.+++.....+  -..++|++....
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~   59 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEES   59 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccCC
Confidence            35789999999999999999987655432  356788887443

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=93.27  E-value=0.48  Score=54.55  Aligned_cols=93  Identities=19%  Similarity=0.364  Sum_probs=60.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      +...++|.|.+|+|||+|+.++++.... .+-+.++|+-+.+.. .+.++++.+...-....      ..+...      
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~~-~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMVG-QHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            4467899999999999999999888653 234678888887654 45566666554321110      111111      


Q ss_pred             HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++.  +++++|+++||+..-
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecChHHH
Confidence            122234566665  379999999998765

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.25  E-value=0.35  Score=59.54  Aligned_cols=86  Identities=14%  Similarity=0.140  Sum_probs=57.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      .+++-|+|.+|+||||||.+++......  =..++|++..+.++..     .+++++.+.+.     ....+.....+..
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i~~  132 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  132 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHHHH
Confidence            5788899999999999998877655432  3568999988877743     66777765321     1222333333333


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+.+++.-+||+|-+...
T Consensus       133 lv~~~~~~LVVIDSI~aL  150 (790)
T PRK09519        133 LIRSGALDIVVIDSVAAL  150 (790)
T ss_pred             HhhcCCCeEEEEcchhhh
Confidence            344557789999998644

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.24  E-value=0.16  Score=48.83  Aligned_cols=39  Identities=21%  Similarity=0.390  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ++|.|+|..|+|||||++.+.+....+ .+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR-GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence            489999999999999999999998753 355555565554

>PRK06217 hypothetical protein; Validated

Probab=93.23  E-value=0.14  Score=52.30  Aligned_cols=34  Identities=26%  Similarity=0.316  Sum_probs=26.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccC--CEEEEE
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVF--DKVVMA  216 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv  216 (1209)
                      .|.|.|.+|.||||+|+++++.... .+|  |..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeec
Confidence            4899999999999999999988754 233  456664

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=93.23  E-value=0.46  Score=49.64  Aligned_cols=95  Identities=20%  Similarity=0.278  Sum_probs=61.7

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ...++-|-+..+++|.+..+=             ...+-|.++|.+|.|||-||++|+|.-...  |-.++     .   
T Consensus       183 ty~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT--FlRvv-----G---  252 (440)
T KOG0726|consen  183 TYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT--FLRVV-----G---  252 (440)
T ss_pred             hhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh--hhhhh-----h---
Confidence            355666888889999888751             124567799999999999999999887654  42211     0   


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                       .++   |-+.+|-.       ....+.+.+.-....+.++++|.++..
T Consensus       253 -seL---iQkylGdG-------pklvRqlF~vA~e~apSIvFiDEIdAi  290 (440)
T KOG0726|consen  253 -SEL---IQKYLGDG-------PKLVRELFRVAEEHAPSIVFIDEIDAI  290 (440)
T ss_pred             -HHH---HHHHhccc-------hHHHHHHHHHHHhcCCceEEeehhhhh
Confidence             011   22223211       456666666665567788888888654

>PRK00625 shikimate kinase; Provisional

Probab=93.19  E-value=0.073  Score=53.33  Aligned_cols=24  Identities=38%  Similarity=0.407  Sum_probs=21.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.++||+|+||||+++.+++...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988764

>PRK14529 adenylate kinase; Provisional

Probab=93.19  E-value=0.27  Score=51.30  Aligned_cols=84  Identities=14%  Similarity=0.134  Sum_probs=46.5

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCC--EEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFD--KVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~--~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      |.|.|++|+||||+|+.++...... +..  .++.-.+..........+.++..-.     ....+-....+.+++.+..
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~-~is~gdllr~~i~~~t~lg~~i~~~i~~G~-----lvpdei~~~lv~~~l~~~~   76 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLA-HIESGAIFREHIGGGTELGKKAKEYIDRGD-----LVPDDITIPMILETLKQDG   76 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CcccchhhhhhccCCChHHHHHHHHHhccC-----cchHHHHHHHHHHHHhccC
Confidence            7899999999999999999887642 221  1111122222223333344443211     1111334455666665322


Q ss_pred             eEEEEEeCCCcc
Q 038494          261 RVLIILDNIWKK  272 (1209)
Q Consensus       261 ~~LlvlDdv~~~  272 (1209)
                      ..-+|||.+-..
T Consensus        77 ~~g~iLDGfPRt   88 (223)
T PRK14529         77 KNGWLLDGFPRN   88 (223)
T ss_pred             CCcEEEeCCCCC
Confidence            456899998654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=93.18  E-value=0.25  Score=55.82  Aligned_cols=48  Identities=29%  Similarity=0.284  Sum_probs=37.8

Q ss_pred             cchhhHHHHHHHHHHHHhCC--------------CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          159 EAFDSRMKLFQDVVEALRND--------------KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..++|.++.++.+.-++...              ..+.|.++|++|+|||++|+.++.....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35788888888887666531              1357889999999999999999988764

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=93.16  E-value=0.063  Score=49.59  Aligned_cols=28  Identities=39%  Similarity=0.640  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCE
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDK  212 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  212 (1209)
                      |.|+|.+|+|||++|+.++......  |..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~--f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLS--FKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT----EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCc--eeE
Confidence            6799999999999999999887643  643

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=93.08  E-value=0.54  Score=55.90  Aligned_cols=128  Identities=22%  Similarity=0.267  Sum_probs=69.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc------ccCCEEEEEEcCCC---------------c-C-HHHHHHHHHHHhC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED------KVFDKVVMAEVTEN---------------P-D-VQKIQDKLASDLD  236 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~------~~f~~~~wv~~s~~---------------~-~-~~~l~~~i~~~l~  236 (1209)
                      ...|+|+|+.|+|||||.+.+.......      ..--.+.|++-...               + + ...-.+..+.+++
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~  427 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFG  427 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcC
Confidence            4579999999999999999997655322      00112233322110               0 1 1344455555555


Q ss_pred             CCCCCCC------ChHHHHHHHHHHHhcCCeEEEEEeCCCcc------cCccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          237 LNFDLND------SKPHRAKQLCQRLTKEKRVLIILDNIWKK------LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       237 ~~~~~~~------~~~~~~~~l~~~l~~~k~~LlvlDdv~~~------~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      .+.+...      ..-+..+.....+.-.++-++|||.=.+.      +.+++....+            .|+ ||+.|.
T Consensus       428 F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f------------~Gt-vl~VSH  494 (530)
T COG0488         428 FTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDF------------EGT-VLLVSH  494 (530)
T ss_pred             CChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC------------CCe-EEEEeC
Confidence            4433221      11233444444444468899999975544      3333333333            344 888999


Q ss_pred             chhhhcccCCcceEEEcC
Q 038494          305 SKHLLTNDMNSQKIFLIE  322 (1209)
Q Consensus       305 ~~~v~~~~~~~~~~~~l~  322 (1209)
                      ++.....  .+..++.+.
T Consensus       495 Dr~Fl~~--va~~i~~~~  510 (530)
T COG0488         495 DRYFLDR--VATRIWLVE  510 (530)
T ss_pred             CHHHHHh--hcceEEEEc
Confidence            9876643  223444444

>PTZ00088 adenylate kinase 1; Provisional

Probab=93.05  E-value=0.14  Score=53.87  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=21.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.+++...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            388999999999999999988764

>PRK04040 adenylate kinase; Provisional

Probab=93.04  E-value=0.088  Score=53.72  Aligned_cols=25  Identities=32%  Similarity=0.603  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|+|++|+||||+++.+++...
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999998874

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=93.01  E-value=0.089  Score=54.11  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +.++|.|.|++|+||||+|+.++...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998765

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.01  E-value=0.22  Score=52.84  Aligned_cols=64  Identities=20%  Similarity=0.344  Sum_probs=46.4

Q ss_pred             HHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          169 QDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       169 ~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      .+++..+.  .+...+|+|+|.+|+|||||.-.+......+.+=-.++=|+-|.+++--.++.+=.
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRi  103 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRI  103 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHh
Confidence            44454444  35567999999999999999999999987766555667777777776555544433

>PRK11823 DNA repair protein RadA; Provisional

Probab=92.97  E-value=0.23  Score=58.15  Aligned_cols=87  Identities=24%  Similarity=0.278  Sum_probs=52.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCC-ChHHHHHHHHHHHhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLND-SKPHRAKQLCQRLTK  258 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~-~~~~~~~~l~~~l~~  258 (1209)
                      ..++.|.|.+|+|||||+.+++.....+  -..++|++..+.  ..++.. -++.++....... ..+.....+.+.+.+
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            4689999999999999999999877632  246788876543  333322 2455554321100 001123344445544


Q ss_pred             CCeEEEEEeCCCc
Q 038494          259 EKRVLIILDNIWK  271 (1209)
Q Consensus       259 ~k~~LlvlDdv~~  271 (1209)
                      .+.-+||+|.+..
T Consensus       155 ~~~~lVVIDSIq~  167 (446)
T PRK11823        155 EKPDLVVIDSIQT  167 (446)
T ss_pred             hCCCEEEEechhh
Confidence            4667899998754

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=92.94  E-value=0.1  Score=53.32  Aligned_cols=29  Identities=41%  Similarity=0.652  Sum_probs=25.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ++.+|+|.|.+|.||||+|+.++......
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            45789999999999999999999988753

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=92.93  E-value=0.12  Score=53.40  Aligned_cols=29  Identities=38%  Similarity=0.540  Sum_probs=24.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK  208 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~  208 (1209)
                      ...|.++||+|.||||+.++++.....+.
T Consensus        19 p~~ilVvGMAGSGKTTF~QrL~~hl~~~~   47 (366)
T KOG1532|consen   19 PVIILVVGMAGSGKTTFMQRLNSHLHAKK   47 (366)
T ss_pred             CcEEEEEecCCCCchhHHHHHHHHHhhcc
Confidence            45788999999999999999998877653

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=92.92  E-value=0.15  Score=55.56  Aligned_cols=51  Identities=16%  Similarity=0.236  Sum_probs=40.3

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      +..+++.|+|.+|+|||++|.++.......  ...++||+..+.  ..++.+.+.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~--~~~l~~~~~   71 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEES--PEELLENAR   71 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCC--HHHHHHHHH
Confidence            346799999999999999999999998865  778999998775  344444433

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=92.91  E-value=0.22  Score=45.90  Aligned_cols=45  Identities=27%  Similarity=0.405  Sum_probs=31.5

Q ss_pred             chhhHHHHHHHHHHHHh----C---CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR----N---DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~----~---~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|..-..+.+++++.    +   .+.=|++.+|.+|+|||.+|+.+++..
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            34555544444544443    2   334588999999999999999999874

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=92.88  E-value=0.23  Score=50.69  Aligned_cols=51  Identities=24%  Similarity=0.481  Sum_probs=36.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      .|+|.|-||+||||+|...+.....++.| .+.=|+...++++.       +++|...+
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~-~VLvVDaDpd~nL~-------~~LGve~~   52 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGY-NVLVVDADPDSNLP-------EALGVEEP   52 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCc-eEEEEeCCCCCChH-------HhcCCCCC
Confidence            58999999999999999977777655433 35556666665543       55666553

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=92.87  E-value=0.15  Score=57.02  Aligned_cols=49  Identities=16%  Similarity=0.273  Sum_probs=42.6

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +...++|.++.+..|.-.+.++...-|.|.|..|+||||+|+.+++-..
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3668999999999999888888777788999999999999999987654

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=92.86  E-value=0.16  Score=56.81  Aligned_cols=47  Identities=23%  Similarity=0.305  Sum_probs=39.9

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...++|.++.+..++-.+.++...-+.|.|..|+||||+++.+..-.
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            45788999999888777777666678899999999999999998665

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=92.86  E-value=0.25  Score=50.24  Aligned_cols=120  Identities=18%  Similarity=0.232  Sum_probs=62.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE---cCCCcCHHHHH------HHHHHHhCCCCCC------CC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE---VTENPDVQKIQ------DKLASDLDLNFDL------ND  243 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~---~s~~~~~~~l~------~~i~~~l~~~~~~------~~  243 (1209)
                      +..+++|+|..|.|||||++.++-....   ..+.+++.   +.. .+.....      .++++.++.....      -+
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~---~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKP---SSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC---CCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            3468999999999999999999865432   23333332   221 1221211      1245555543211      11


Q ss_pred             ChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---ccccCCCCCCCCccccccccCCcEEEEeccchhhh
Q 038494          244 SKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL  309 (1209)
Q Consensus       244 ~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~  309 (1209)
                      ....+.-.+.+.+. ..+-++++|+-...-+   .+.+...+..-.      ...+..||++|.+....
T Consensus       100 ~G~~qrl~laral~-~~p~llllDEP~~~LD~~~~~~~~~~l~~~~------~~~~~tiii~sh~~~~~  161 (180)
T cd03214         100 GGERQRVLLARALA-QEPPILLLDEPTSHLDIAHQIELLELLRRLA------RERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHHh-cCCCEEEEeCCccCCCHHHHHHHHHHHHHHH------HhcCCEEEEEeCCHHHH
Confidence            12233334555555 4778999998764422   111211111100      00266788888876543

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=92.84  E-value=0.28  Score=56.36  Aligned_cols=91  Identities=21%  Similarity=0.279  Sum_probs=51.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh-----CCCCCCCCCh------HH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL-----DLNFDLNDSK------PH  247 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l-----~~~~~~~~~~------~~  247 (1209)
                      ....++|+|.+|+|||||++.++.....   ..+++|..--...++.++........     ..-...+...      ..
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~~p---d~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~  240 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARADAF---DTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPL  240 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCC---CeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHH
Confidence            3458999999999999999888754432   23455554333344554444333322     1111111111      11


Q ss_pred             HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          248 RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       248 ~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ..-.+-+++. +++.+|+++||+...
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~DslTr~  266 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSVTRF  266 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchHHH
Confidence            2223445554 479999999998765

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=92.83  E-value=0.15  Score=56.71  Aligned_cols=48  Identities=25%  Similarity=0.300  Sum_probs=39.0

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +...++|.++.++.+.-.+.+.+..-+.+.|.+|+||||+|+.++.-.
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            366789999998888765554444568899999999999999998765

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=92.77  E-value=0.88  Score=52.44  Aligned_cols=93  Identities=22%  Similarity=0.367  Sum_probs=59.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      +...++|.|.+|+|||||+..++...... +-+.++++-+.+.. .+.++++.+...-....      ..+...      
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~-~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhc-CCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            45678999999999999999999876542 23567778776654 45666666654321111      111111      


Q ss_pred             HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++.  +++++|+++||+..-
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence            112234556664  378999999999765

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=92.76  E-value=0.55  Score=50.34  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..|+|++|+|||+||..++....
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567999999999999999997764

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=92.75  E-value=0.4  Score=47.79  Aligned_cols=82  Identities=16%  Similarity=0.174  Sum_probs=46.6

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC-Ce
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE-KR  261 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~-k~  261 (1209)
                      +.|.|.+|.|||++|.+++...     ...++++.-...++.+ +.+.|.+......... ...+....+.+.+.+. +.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w-~t~E~~~~l~~~l~~~~~~   74 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDDE-MAERIARHRKRRPAHW-RTIETPRDLVSALKELDPG   74 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCc-eEeecHHHHHHHHHhcCCC
Confidence            6799999999999999998651     2356777766666543 4444443222111111 1122233344444321 23


Q ss_pred             EEEEEeCCCc
Q 038494          262 VLIILDNIWK  271 (1209)
Q Consensus       262 ~LlvlDdv~~  271 (1209)
                      -.|++|.+..
T Consensus        75 ~~VLIDclt~   84 (169)
T cd00544          75 DVVLIDCLTL   84 (169)
T ss_pred             CEEEEEcHhH
Confidence            4799998753

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=92.65  E-value=0.093  Score=50.82  Aligned_cols=20  Identities=45%  Similarity=0.748  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIA  201 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~  201 (1209)
                      .|+|.|.+|+||||+|..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999997

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=92.63  E-value=0.22  Score=48.28  Aligned_cols=31  Identities=23%  Similarity=0.483  Sum_probs=27.3

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .++..+|-++|.+|.||||+|..+++....+
T Consensus        20 ~~~~~viW~TGLSGsGKSTiA~ale~~L~~~   50 (197)
T COG0529          20 GQKGAVIWFTGLSGSGKSTIANALEEKLFAK   50 (197)
T ss_pred             CCCCeEEEeecCCCCCHHHHHHHHHHHHHHc
Confidence            4556799999999999999999999998764

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=92.62  E-value=0.12  Score=54.14  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      .+++.|+|+.|.||||+.+.+...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHH
Confidence            378999999999999999999854

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.60  E-value=0.032  Score=55.21  Aligned_cols=70  Identities=16%  Similarity=0.268  Sum_probs=54.1

Q ss_pred             ccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccccc
Q 038494          813 HRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKL  885 (1209)
Q Consensus       813 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l  885 (1209)
                      ....+++++.|.+.+|..+.+|+.+.+.  +-.|+|+.|+|++|+.+++-. +..+.++++|+.|.|.+.+.+
T Consensus       120 ~L~~l~~i~~l~l~~ck~~dD~~L~~l~--~~~~~L~~L~lsgC~rIT~~G-L~~L~~lknLr~L~l~~l~~v  189 (221)
T KOG3864|consen  120 HLRDLRSIKSLSLANCKYFDDWCLERLG--GLAPSLQDLDLSGCPRITDGG-LACLLKLKNLRRLHLYDLPYV  189 (221)
T ss_pred             HHhccchhhhheeccccchhhHHHHHhc--ccccchheeeccCCCeechhH-HHHHHHhhhhHHHHhcCchhh
Confidence            3345788888889999999988876554  368999999999999888753 356677888888888876544

>PRK12678 transcription termination factor Rho; Provisional

Probab=92.60  E-value=0.23  Score=57.75  Aligned_cols=101  Identities=24%  Similarity=0.290  Sum_probs=54.6

Q ss_pred             HHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEE-EEEEcCCCc-CHHHHHHHHHHHh-CCCCCCCCC--
Q 038494          171 VVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKV-VMAEVTENP-DVQKIQDKLASDL-DLNFDLNDS--  244 (1209)
Q Consensus       171 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~-~wv~~s~~~-~~~~l~~~i~~~l-~~~~~~~~~--  244 (1209)
                      +++.+.. .......|+|.+|+|||||++.+++.... .+.+.. +.+-+.+.. .+.++.+.+-..+ ....+....  
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~~-n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~  484 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITT-NNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDH  484 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHhh-cCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHH
Confidence            4444431 34457899999999999999999987754 234433 344444432 2333322220000 111111111  


Q ss_pred             --hHHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          245 --KPHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 --~~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                        .....-.+-+++. .++.+||++|++...
T Consensus       485 ~~~a~~ai~~Ae~fre~G~dVlillDSlTR~  515 (672)
T PRK12678        485 TTVAELAIERAKRLVELGKDVVVLLDSITRL  515 (672)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEeCchHH
Confidence              1122233444553 589999999998755

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=92.59  E-value=0.88  Score=49.92  Aligned_cols=52  Identities=23%  Similarity=0.264  Sum_probs=37.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ..++.|.|.+|+||||++.+++.....+ +=..++|+++...  ..++...+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~--~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEEP--VVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEcccC--HHHHHHHHHHH
Confidence            4588999999999999999998876533 1246888887653  45555555443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR00416 sms DNA repair protein RadA

Probab=92.58  E-value=0.34  Score=56.84  Aligned_cols=88  Identities=26%  Similarity=0.285  Sum_probs=52.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCC-ChHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLND-SKPHRAKQLCQRLT  257 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~-~~~~~~~~l~~~l~  257 (1209)
                      ...++.|.|.+|+|||||+.+++.....+  -..++|++..+.  ..++.. -++.++....... ..+.....+.+.+.
T Consensus        93 ~GsvilI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i~  167 (454)
T TIGR00416        93 PGSLILIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWEQICANIE  167 (454)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHHH
Confidence            34689999999999999999998776543  135788876543  333322 2334443221100 00112234445554


Q ss_pred             cCCeEEEEEeCCCc
Q 038494          258 KEKRVLIILDNIWK  271 (1209)
Q Consensus       258 ~~k~~LlvlDdv~~  271 (1209)
                      +.+.-++|+|.+..
T Consensus       168 ~~~~~~vVIDSIq~  181 (454)
T TIGR00416       168 EENPQACVIDSIQT  181 (454)
T ss_pred             hcCCcEEEEecchh
Confidence            44667889998854

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=92.54  E-value=0.21  Score=50.68  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|.|..|.|||||++.++-...
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCC
Confidence            45899999999999999999986543

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=92.53  E-value=0.43  Score=56.88  Aligned_cols=88  Identities=17%  Similarity=0.251  Sum_probs=56.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC---------------CC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL---------------ND  243 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~---------------~~  243 (1209)
                      ...++.|.|.+|+|||||+.+++.....+  -..+++++..+  +..++.+.+ +.++.+...               ..
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~~  336 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACAN--KERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPESA  336 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccccC
Confidence            34789999999999999999999887643  24566666544  455555553 455543211               01


Q ss_pred             ChHHHHHHHHHHHhcCCeEEEEEeCCCc
Q 038494          244 SKPHRAKQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       244 ~~~~~~~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      ..++.+..+.+.+...+.-.+|+|.+..
T Consensus       337 ~~~~~~~~i~~~i~~~~~~~vvIDsi~~  364 (484)
T TIGR02655       337 GLEDHLQIIKSEIADFKPARIAIDSLSA  364 (484)
T ss_pred             ChHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            1244556666666544556778887753

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=92.49  E-value=0.26  Score=55.67  Aligned_cols=66  Identities=20%  Similarity=0.173  Sum_probs=49.8

Q ss_pred             chhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      .++|+++.+..+..++..++  .+.+.|.+|+|||++|+.++.....     ..+++.+.......++.....
T Consensus        25 ~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l~~-----~~~~i~~t~~l~p~d~~G~~~   90 (329)
T COG0714          25 VVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARALGL-----PFVRIQCTPDLLPSDLLGTYA   90 (329)
T ss_pred             eeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHhCC-----CeEEEecCCCCCHHHhcCchh
Confidence            37788888888777766543  6789999999999999999988763     245677777777766655444

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=92.43  E-value=0.74  Score=52.93  Aligned_cols=90  Identities=19%  Similarity=0.272  Sum_probs=54.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      +...++|+|..|+|||||++.+++....    +.++++-+.+.. .+.++.+..+..-+...      ..+...      
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~~----d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNADA----DVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCC----CEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            4568999999999999999999876542    445556665543 34455444443322110      111111      


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. +++.+|+++||+..-
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr~  260 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTRF  260 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHHH
Confidence            112223555553 589999999999754

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=92.42  E-value=0.89  Score=52.60  Aligned_cols=93  Identities=23%  Similarity=0.379  Sum_probs=59.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      +...++|.|.+|+|||||+..++....... -+.++++-+.+.. .+.++++.+...-....      ..+...      
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            456889999999999999999988776432 3567777776654 45666666654322110      111111      


Q ss_pred             HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++.  +++++||++|++..-
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecchHHH
Confidence            112233555553  479999999999765

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=92.38  E-value=0.83  Score=57.41  Aligned_cols=48  Identities=17%  Similarity=0.242  Sum_probs=37.0

Q ss_pred             ccchhhHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          158 FEAFDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...++|+...+..+.+.+.  ......|.|+|..|+|||++|+.+++...
T Consensus       375 ~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~  424 (686)
T PRK15429        375 FGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSG  424 (686)
T ss_pred             ccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            3467898888888776665  22334788999999999999999987653

>PRK00131 aroK shikimate kinase; Reviewed

Probab=92.34  E-value=0.13  Score=52.19  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|+|++|+||||+|+.+++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999998874

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=92.32  E-value=3.1  Score=45.32  Aligned_cols=153  Identities=13%  Similarity=0.133  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC-----
Q 038494          165 MKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN-----  238 (1209)
Q Consensus       165 ~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~-----  238 (1209)
                      ...++.+...+..++. ....++|  |+||+++|..++...-..+..+..   .++    .-..-+.+...-..+     
T Consensus         8 ~~~~~~L~~~~~~~rl~hAyLf~G--~~G~~~~A~~~A~~llC~~~~~~~---~Cg----~C~~C~~i~~~~HPD~~~i~   78 (290)
T PRK07276          8 PKVFQRFQTILEQDRLNHAYLFSG--DFASFEMALFLAQSLFCEQKEGVL---PCG----HCRSCRLIEQGEFSDVTVIE   78 (290)
T ss_pred             HHHHHHHHHHHHcCCcceeeeeeC--CccHHHHHHHHHHHHcCCCCCCCC---CCC----CCHHHHHHhcCCCCCeeeec
Confidence            3445666666666554 4566777  689999999998766432211000   000    000111111100000     


Q ss_pred             CCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc-hhhhcc
Q 038494          239 FDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-KHLLTN  311 (1209)
Q Consensus       239 ~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-~~v~~~  311 (1209)
                      ........+.++.+.+.+.    .+++-++|+||++...  ....+...+-...        .++.+|++|.+ ..+..+
T Consensus        79 p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp--------~~t~~iL~t~~~~~lLpT  150 (290)
T PRK07276         79 PQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQ--------SEIYIFLLTNDENKVLPT  150 (290)
T ss_pred             CCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCCC--------CCeEEEEEECChhhCchH
Confidence            0001112456666666554    2566799999998763  4444433332222        44556666654 445555


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHH
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEK  335 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~  335 (1209)
                      .......+.+.+ +.++..+.+..
T Consensus       151 I~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        151 IKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             HHHcceeeeCCC-cHHHHHHHHHH
Confidence            456667888876 66666666653

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=92.27  E-value=0.15  Score=61.37  Aligned_cols=48  Identities=19%  Similarity=0.247  Sum_probs=40.2

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...++|.+..++.+...+.......|.|+|.+|+|||++|+.+++..+
T Consensus        64 f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~  111 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAK  111 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            557899999999999887665556778999999999999999987543

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=92.25  E-value=0.56  Score=53.72  Aligned_cols=90  Identities=19%  Similarity=0.299  Sum_probs=54.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      ....++|+|..|+|||||++.++....    .+.++.+-+.+.. .+.++.+.++..-+...      ..+...      
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~~----~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            446899999999999999999985432    3455666666654 34555555543322110      111111      


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. +++++|+++||+..-
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcChHHH
Confidence            111223455553 479999999998765

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=92.24  E-value=0.1  Score=53.37  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +|.|+|++|+||||+|+.++....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999988653

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=92.20  E-value=0.3  Score=47.72  Aligned_cols=117  Identities=20%  Similarity=0.199  Sum_probs=61.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc---CCCcCHHHHHHHHH--H--HhCCCCC-CCCChHH-----
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV---TENPDVQKIQDKLA--S--DLDLNFD-LNDSKPH-----  247 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~---s~~~~~~~l~~~i~--~--~l~~~~~-~~~~~~~-----  247 (1209)
                      ..|-|++-.|.||||.|...+-+..... + .+.++-.   .........++.+-  .  +.+.... ...+..+     
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g-~-~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a   80 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHG-Y-RVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAA   80 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHH
Confidence            4678889999999999999988876532 2 3444332   22233333333320  0  0011100 0011111     


Q ss_pred             --HHHHHHHHHhcCCeEEEEEeCCCccc-----CccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          248 --RAKQLCQRLTKEKRVLIILDNIWKKL-----GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       248 --~~~~l~~~l~~~k~~LlvlDdv~~~~-----~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                        ..+...+.+..++--|||||++-..-     ..+.+...+....        .+.-+|+|.|+..
T Consensus        81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp--------~~~evIlTGr~~p  139 (159)
T cd00561          81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKP--------EDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCC--------CCCEEEEECCCCC
Confidence              22233444444566799999986552     2222322222222        5668999999864

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.19  E-value=0.029  Score=55.50  Aligned_cols=45  Identities=24%  Similarity=0.445  Sum_probs=39.0

Q ss_pred             cccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccc
Q 038494          948 IAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKT  992 (1209)
Q Consensus       948 ~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~  992 (1209)
                      ..+++++.|.+.+|..+.+++........|+|+.|+|++|+.+++
T Consensus       122 ~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~  166 (221)
T KOG3864|consen  122 RDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD  166 (221)
T ss_pred             hccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeech
Confidence            467889999999999999998877666789999999999999873

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=92.17  E-value=0.13  Score=52.03  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.+.|++|.||||+|+.+.....
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            35899999999999999999987753

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=92.17  E-value=0.4  Score=54.26  Aligned_cols=48  Identities=29%  Similarity=0.277  Sum_probs=38.1

Q ss_pred             cchhhHHHHHHHHHHHHhCC--------------CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          159 EAFDSRMKLFQDVVEALRND--------------KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..++|.++.++.+..++...              ....|.++|++|+|||++|+.++.....
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~   76 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35789988888888777420              1357899999999999999999988753

>PRK06851 hypothetical protein; Provisional

Probab=92.15  E-value=1.3  Score=49.96  Aligned_cols=44  Identities=32%  Similarity=0.300  Sum_probs=33.8

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      .+-.+++.|.|.+|+||||+++.++.....+ .++..++-|.+++
T Consensus       211 ~~~~~~~~i~G~pG~GKstl~~~i~~~a~~~-G~~v~~~hC~~dP  254 (367)
T PRK06851        211 EGVKNRYFLKGRPGTGKSTMLKKIAKAAEER-GFDVEVYHCGFDP  254 (367)
T ss_pred             cccceEEEEeCCCCCcHHHHHHHHHHHHHhC-CCeEEEEeCCCCC
Confidence            3445789999999999999999999998754 3555565555554

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

Probab=92.00  E-value=0.45  Score=45.22  Aligned_cols=106  Identities=16%  Similarity=0.321  Sum_probs=64.4

Q ss_pred             cChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccC
Q 038494          558 ISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQ  633 (1209)
Q Consensus       558 ~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~  633 (1209)
                      +++..|.++.+|+.+.+.. .+..++. .+..+.+|+.+.+.++ +..+  ..+.++..|+.+.+.. .+..++. .+..
T Consensus         3 i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~   79 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSN   79 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT
T ss_pred             ECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccc
Confidence            5567788999999999985 5666655 6788889999999875 7766  6678888899999865 5555544 3566


Q ss_pred             CCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          634 LAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       634 L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      +++|+.+.+..  .+..++...+.+. +|+.+.+..
T Consensus        80 ~~~l~~i~~~~--~~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   80 CTNLKNIDIPS--NITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             -TTECEEEETT--T-BEEHTTTTTT--T--EEE-TT
T ss_pred             cccccccccCc--cccEEchhhhcCC-CceEEEECC
Confidence            88888888865  3556666667776 888887654

>PTZ00185 ATPase alpha subunit; Provisional

Probab=91.99  E-value=0.86  Score=52.69  Aligned_cols=93  Identities=15%  Similarity=0.190  Sum_probs=54.6

Q ss_pred             CceEEEEEcCCCChHHHHH-HHHHHHHhh-----cccCCEEEEEEcCCCcC-HHHHHHHHHHHhC-CCC------CCCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLV-KQIAKQVME-----DKVFDKVVMAEVTENPD-VQKIQDKLASDLD-LNF------DLNDS  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa-~~~~~~~~~-----~~~f~~~~wv~~s~~~~-~~~l~~~i~~~l~-~~~------~~~~~  244 (1209)
                      ....+.|.|-.|+|||+|| -.+.+....     ...-+.++++.+++... +.+ +...++.-+ ...      ...+.
T Consensus       188 RGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~e-i~~~L~e~GaL~~TvVV~AtAdep  266 (574)
T PTZ00185        188 RGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVAR-IHRLLRSYGALRYTTVMAATAAEP  266 (574)
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHH-HHHHHHhcCCccceEEEEECCCCC
Confidence            3467899999999999997 555665522     12335678888887654 333 333333333 110      01111


Q ss_pred             hH------HHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          245 KP------HRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 ~~------~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ..      -..-.+-+++. +++..|+|+||+..-
T Consensus       267 ~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~  301 (574)
T PTZ00185        267 AGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQ  301 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHH
Confidence            11      11223445553 478999999999765

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=91.99  E-value=0.17  Score=50.18  Aligned_cols=28  Identities=25%  Similarity=0.510  Sum_probs=25.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..++++|+|..|+|||||++.+......
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            3568999999999999999999988765

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=91.95  E-value=0.93  Score=43.64  Aligned_cols=27  Identities=33%  Similarity=0.521  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...++|.|++|+||+||.+.++.-...
T Consensus        29 Ge~iaitGPSG~GKStllk~va~Lisp   55 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIVASLISP   55 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHHHhccCC
Confidence            457999999999999999999976554

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=91.95  E-value=1.2  Score=49.25  Aligned_cols=89  Identities=15%  Similarity=0.148  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHh----CCCC---------CCCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDL----DLNF---------DLNDS  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l----~~~~---------~~~~~  244 (1209)
                      +...++|.|..|+|||+|++++++...    -+.++++-+.+.. .+.++++++-+.-    +...         .....
T Consensus       156 kGqr~~I~G~~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p  231 (369)
T cd01134         156 KGGTAAIPGPFGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMP  231 (369)
T ss_pred             CCCEEEEECCCCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCC
Confidence            445899999999999999999988643    3578888887654 4555555543211    1110         00111


Q ss_pred             h------HHHHHHHHHHHh-cCCeEEEEEeCCCc
Q 038494          245 K------PHRAKQLCQRLT-KEKRVLIILDNIWK  271 (1209)
Q Consensus       245 ~------~~~~~~l~~~l~-~~k~~LlvlDdv~~  271 (1209)
                      .      ....-.+-+++. .++.+|+++|++..
T Consensus       232 ~~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR  265 (369)
T cd01134         232 VAAREASIYTGITIAEYFRDMGYNVALMADSTSR  265 (369)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhH
Confidence            0      111223445553 47889999999754

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=91.93  E-value=1.5  Score=48.91  Aligned_cols=38  Identities=29%  Similarity=0.613  Sum_probs=29.5

Q ss_pred             HHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          170 DVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       170 ~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .+.+.+.  .....+|+|.|.+|+||||++..+....+..
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3444443  3456799999999999999999998887754

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=91.93  E-value=0.41  Score=60.21  Aligned_cols=179  Identities=17%  Similarity=0.223  Sum_probs=90.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh-c-------------ccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME-D-------------KVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDS  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~-~-------------~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~  244 (1209)
                      +.+++.|+|+.+.||||+.+.++-..-- +             ..|+. ++..++...++..-...+...          
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~-i~~~ig~~~si~~~lStfS~~----------  394 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKE-IFADIGDEQSIEQSLSTFSGH----------  394 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccce-EEEecCCccchhhchhHHHHH----------
Confidence            4578999999999999999988744211 0             11222 223333332222211111111          


Q ss_pred             hHHHHHHHHHHHhcCCeEEEEEeCCCcccCc---ccc----CCCCCCCCccccccccCCcEEEEeccchhhhcccCCcc-
Q 038494          245 KPHRAKQLCQRLTKEKRVLIILDNIWKKLGL---EEI----GIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQ-  316 (1209)
Q Consensus       245 ~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~---~~l----~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~-  316 (1209)
                       ......+...+  +.+-|+++|....--+.   ..+    ...+.          ..|+.+|+||....+........ 
T Consensus       395 -m~~~~~Il~~~--~~~sLvLlDE~~~GtDp~eg~ala~aile~l~----------~~~~~vIitTH~~el~~~~~~~~~  461 (782)
T PRK00409        395 -MTNIVRILEKA--DKNSLVLFDELGAGTDPDEGAALAISILEYLR----------KRGAKIIATTHYKELKALMYNREG  461 (782)
T ss_pred             -HHHHHHHHHhC--CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH----------HCCCEEEEECChHHHHHHHhcCCC
Confidence             11222233333  46789999998754221   111    11111          15788999999977653222111 


Q ss_pred             -eEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 038494          317 -KIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRN  388 (1209)
Q Consensus       317 -~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~~~l~~  388 (1209)
                       ....+. ++. +......+...+..    -...|-+|++++ |+|-.+.--|..+-......++.+++.+..
T Consensus       462 v~~~~~~-~d~-~~l~~~Ykl~~G~~----g~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l~~  527 (782)
T PRK00409        462 VENASVE-FDE-ETLRPTYRLLIGIP----GKSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASLEE  527 (782)
T ss_pred             eEEEEEE-Eec-CcCcEEEEEeeCCC----CCcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence             111111 111 11100000000111    135677888887 788888888877765555567777776654

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=91.92  E-value=0.14  Score=52.15  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+++|+|++|+||||+++.++....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=91.92  E-value=0.16  Score=48.62  Aligned_cols=25  Identities=36%  Similarity=0.604  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++++|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            4789999999999999999887776

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=91.92  E-value=1.7  Score=48.40  Aligned_cols=38  Identities=37%  Similarity=0.465  Sum_probs=29.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV  218 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  218 (1209)
                      +..+|+++|++|+||||++..++.....+.  ..+..+..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g--~~V~Li~~  150 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQG--KKVLLAAG  150 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcC--CeEEEEec
Confidence            457999999999999999999998876431  24554544

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=91.87  E-value=0.2  Score=51.14  Aligned_cols=38  Identities=29%  Similarity=0.431  Sum_probs=30.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT  219 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s  219 (1209)
                      .++|.|+|++|+|||||+..+......+  |..+++.+-.
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~--~~~~v~~TTR   39 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDK--FGRVVSHTTR   39 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTT--EEEEEEEESS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccc--cccceeeccc
Confidence            4789999999999999999999887643  7655555543

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=91.87  E-value=0.12  Score=52.24  Aligned_cols=23  Identities=39%  Similarity=0.707  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +|+|.|.+|.||||+|+.++...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=91.83  E-value=0.69  Score=49.04  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=22.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|+|.|.+|.||||+|+.+.+..+.
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~   25 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAR   25 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999987754

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>TIGR01069 mutS2 MutS2 family protein

Probab=91.83  E-value=0.17  Score=63.36  Aligned_cols=186  Identities=12%  Similarity=0.129  Sum_probs=88.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH-hhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC----CCC--hHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV-MEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL----NDS--KPHRAKQ  251 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~-~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~----~~~--~~~~~~~  251 (1209)
                      +.+++.|+|+.|.||||+.+.+.-.. ..+.    ..+|++.....+ ..+.++...++.....    ...  .......
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~~l~aq~----G~~Vpa~~~~~~-~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~  395 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLLALMFQS----GIPIPANEHSEI-PYFEEIFADIGDEQSIEQNLSTFSGHMKNISA  395 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHHHHHHHh----CCCccCCccccc-cchhheeeecChHhHHhhhhhHHHHHHHHHHH
Confidence            34789999999999999999998652 1111    112222111000 0011111111110000    000  0111222


Q ss_pred             HHHHHhcCCeEEEEEeCCCcccCc---ccc----CCCCCCCCccccccccCCcEEEEeccchhhhcccCCcc--eEEEcC
Q 038494          252 LCQRLTKEKRVLIILDNIWKKLGL---EEI----GIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQ--KIFLIE  322 (1209)
Q Consensus       252 l~~~l~~~k~~LlvlDdv~~~~~~---~~l----~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~~~~--~~~~l~  322 (1209)
                      +...+  +.+-|+++|....--+.   ..+    ...+.          ..|+.+|+||....+........  ....+.
T Consensus       396 il~~~--~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~----------~~g~~viitTH~~eL~~~~~~~~~v~~~~~~  463 (771)
T TIGR01069       396 ILSKT--TENSLVLFDELGAGTDPDEGSALAISILEYLL----------KQNAQVLITTHYKELKALMYNNEGVENASVL  463 (771)
T ss_pred             HHHhc--CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH----------hcCCEEEEECChHHHHHHhcCCCCeEEeEEE
Confidence            33322  46899999998764221   111    11111          15788999999877643221111  111111


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 038494          323 VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRN  388 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~~~l~~  388 (1209)
                       ++.+ ... |..+.-... +  -...|-+|++++ |+|-.+.--|..+.+.....++.+++.+..
T Consensus       464 -~d~~-~l~-p~Ykl~~G~-~--g~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~~  522 (771)
T TIGR01069       464 -FDEE-TLS-PTYKLLKGI-P--GESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLSA  522 (771)
T ss_pred             -EcCC-CCc-eEEEECCCC-C--CCcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             1111 000 000000011 1  135677888887 788888888877765555566777776654

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=91.81  E-value=0.31  Score=53.78  Aligned_cols=49  Identities=29%  Similarity=0.411  Sum_probs=37.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .+++.+.|.||+||||+|.+.+-......  ..+.-|+.....+..+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999999887777543  44777777777666665544

>PRK15453 phosphoribulokinase; Provisional

Probab=91.80  E-value=1  Score=48.26  Aligned_cols=27  Identities=37%  Similarity=0.486  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+|+|.|.+|.||||+|+.+++...
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999997664

>PRK14531 adenylate kinase; Provisional

Probab=91.77  E-value=0.23  Score=50.61  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..|.|.|++|.||||+|+.++....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g   27 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHG   27 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3588999999999999999988764

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=91.77  E-value=0.13  Score=50.26  Aligned_cols=24  Identities=42%  Similarity=0.664  Sum_probs=21.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +|.|.|.+|+||||+|+.++....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998764

>PRK13947 shikimate kinase; Provisional

Probab=91.76  E-value=0.14  Score=51.65  Aligned_cols=25  Identities=36%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|.|+|++|+||||+|+.+++....
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999988753

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=91.67  E-value=0.36  Score=51.17  Aligned_cols=93  Identities=17%  Similarity=0.197  Sum_probs=57.1

Q ss_pred             cchhhHHHHHHHHHHHHh----CC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          159 EAFDSRMKLFQDVVEALR----ND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~----~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      +.+-|--+.+.++.+.+.    ++         ....+.|||++|.|||-+|+.|+....+.  |-.   +..+.     
T Consensus       132 ~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~n--fl~---v~ss~-----  201 (388)
T KOG0651|consen  132 ENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVN--FLK---VVSSA-----  201 (388)
T ss_pred             HHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCc--eEE---eeHhh-----
Confidence            344455555666666554    11         23578999999999999999999887764  311   11110     


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                           |..      ....+....+++..++..+-.++.|..||++..
T Consensus       202 -----lv~------kyiGEsaRlIRemf~yA~~~~pciifmdeiDAi  237 (388)
T KOG0651|consen  202 -----LVD------KYIGESARLIRDMFRYAREVIPCIIFMDEIDAI  237 (388)
T ss_pred             -----hhh------hhcccHHHHHHHHHHHHhhhCceEEeehhhhhh
Confidence                 110      111122456666666666666799999998753

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=91.65  E-value=0.13  Score=50.55  Aligned_cols=23  Identities=43%  Similarity=0.667  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            36899999999999999998764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=91.62  E-value=0.65  Score=55.44  Aligned_cols=86  Identities=17%  Similarity=0.153  Sum_probs=52.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccC-CEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----------------
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF-DKVVMAEVTENPDVQKIQDKLASDLDLNFD-----------------  240 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----------------  240 (1209)
                      ..+++.|.|.+|+||||+|.+++..-..+  + ..++||+..+  +..++.+.+ +.++.+..                 
T Consensus        20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~--~ge~~lyvs~eE--~~~~l~~~~-~~~G~~~~~~~~~g~l~~~~~~~~~   94 (484)
T TIGR02655        20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIH--FDEPGVFVTFEE--SPQDIIKNA-RSFGWDLQKLVDEGKLFILDASPDP   94 (484)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHh--CCCCEEEEEEec--CHHHHHHHH-HHcCCCHHHHhhcCceEEEecCchh
Confidence            35799999999999999999997665332  2 4677888754  344444443 33332210                 


Q ss_pred             ------CCCChHHHHHHHHHHHhcCCeEEEEEeCC
Q 038494          241 ------LNDSKPHRAKQLCQRLTKEKRVLIILDNI  269 (1209)
Q Consensus       241 ------~~~~~~~~~~~l~~~l~~~k~~LlvlDdv  269 (1209)
                            ...+.......+...+..+++-.+|+|-+
T Consensus        95 ~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl  129 (484)
T TIGR02655        95 EGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSV  129 (484)
T ss_pred             ccccccccCCHHHHHHHHHHHHHHhCCcEEEEeeh
Confidence                  01122344555666666556667888854

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=91.61  E-value=0.26  Score=49.17  Aligned_cols=24  Identities=42%  Similarity=0.643  Sum_probs=20.9

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      |.|+|.+|+||||+++.+++..+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            689999999999999999988854

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=91.58  E-value=0.17  Score=52.08  Aligned_cols=27  Identities=30%  Similarity=0.469  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+++|+|.+|.|||||++.++--.+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            346899999999999999999986554

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=91.51  E-value=0.5  Score=48.73  Aligned_cols=36  Identities=31%  Similarity=0.414  Sum_probs=27.5

Q ss_pred             HHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          172 VEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       172 ~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +..+...+.+++.|.|.+|+||||+++.+.......
T Consensus        10 ~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen   10 VRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             HHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            333333445788999999999999999998877654

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=91.49  E-value=0.16  Score=51.51  Aligned_cols=25  Identities=36%  Similarity=0.700  Sum_probs=22.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|+|.|.+|.||||+|+.++.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999988763

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=91.46  E-value=0.46  Score=54.42  Aligned_cols=41  Identities=32%  Similarity=0.442  Sum_probs=32.8

Q ss_pred             HHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          167 LFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       167 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ..+.+++.+.......+.|.|.||+|||++.+.+.+..+..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~   49 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR   49 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc
Confidence            44556666666666788999999999999999999888653

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=91.45  E-value=0.14  Score=53.24  Aligned_cols=23  Identities=48%  Similarity=0.790  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998775

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK13949 shikimate kinase; Provisional

Probab=91.44  E-value=0.17  Score=50.64  Aligned_cols=24  Identities=42%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|+|+.|.||||+++.+++...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998875

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=91.32  E-value=0.66  Score=49.15  Aligned_cols=98  Identities=26%  Similarity=0.279  Sum_probs=55.1

Q ss_pred             hhhHHHHHHHHHHHHh----C---CCceEEEEEcCCCChHHHHHHHHHHHHhhcc-cCCEE-EEEEcCCCcCHHHHHHHH
Q 038494          161 FDSRMKLFQDVVEALR----N---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-VFDKV-VMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~----~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-~f~~~-~wv~~s~~~~~~~l~~~i  231 (1209)
                      +.|..-..+.++..+.    +   .+.=+++.+|.+|+||.-+++.+++...... +=+.| .++..-+-+....+.   
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie---  160 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIE---  160 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHH---
Confidence            4465555555555554    2   2345899999999999999999998764321 00000 011100111111100   


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                                 .-.++....++...+.-+|-|+|+|+|+..
T Consensus       161 -----------~Yk~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  161 -----------DYKEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             -----------HHHHHHHHHHHHHHHhcCCceEEechhhhc
Confidence                       001344445555555668999999999976

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=91.30  E-value=0.99  Score=48.52  Aligned_cols=50  Identities=16%  Similarity=0.266  Sum_probs=35.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..++.|.|.+|+|||++|.+++.....+.. ..++|++...  +..++...+.
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g-~~vly~s~E~--~~~~~~~r~~   62 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKKQG-KPVLFFSLEM--SKEQLLQRLL   62 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CceEEEeCCC--CHHHHHHHHH
Confidence            468999999999999999999887765312 3567777655  3455555554

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=91.21  E-value=0.31  Score=47.62  Aligned_cols=34  Identities=24%  Similarity=0.484  Sum_probs=27.5

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +++|.+++.+   ++++++|.+|+|||||+..+..+.
T Consensus        26 ~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   26 IEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             HHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            5667777644   689999999999999999886553

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=91.19  E-value=0.2  Score=51.34  Aligned_cols=25  Identities=36%  Similarity=0.472  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|.|.|.+|+||||+|+.++++.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999998875

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=91.18  E-value=0.75  Score=53.40  Aligned_cols=93  Identities=22%  Similarity=0.332  Sum_probs=59.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC-------------CCCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF-------------DLNDS  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~-------------~~~~~  244 (1209)
                      +...++|.|-+|+|||+|+..++...... +-+.++++-+.+.. .+.+++..+...-....             .....
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~~-~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p  238 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAKA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  238 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHHh-cCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCC
Confidence            44678999999999999999998874421 12678888887664 45666666655211110             00111


Q ss_pred             h------HHHHHHHHHHHhc-C-CeEEEEEeCCCcc
Q 038494          245 K------PHRAKQLCQRLTK-E-KRVLIILDNIWKK  272 (1209)
Q Consensus       245 ~------~~~~~~l~~~l~~-~-k~~LlvlDdv~~~  272 (1209)
                      .      ....-.+-+++.. + +++||++||+..-
T Consensus       239 ~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~  274 (494)
T CHL00060        239 PGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRF  274 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHH
Confidence            0      1223346667753 4 4899999999765

>PRK14530 adenylate kinase; Provisional

Probab=91.16  E-value=0.19  Score=52.94  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.|.|+|++|+||||+|+.++....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999987764

>PRK08149 ATP synthase SpaL; Validated

Probab=91.16  E-value=0.88  Score=52.26  Aligned_cols=90  Identities=19%  Similarity=0.274  Sum_probs=53.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCC-------CCCCCC-----h
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLN-------FDLNDS-----K  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~-------~~~~~~-----~  245 (1209)
                      +...++|+|.+|+|||||+..++....    .+.++...+.. ..++.++...........       ..+.+.     .
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a  225 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNA  225 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhH
Confidence            456899999999999999998886543    23333344433 234556666665533211       011111     0


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ......+-+++. ++|++||++||+...
T Consensus       226 ~~~a~tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        226 ALVATTVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccchHHH
Confidence            122234455553 589999999998765

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

Probab=91.15  E-value=0.27  Score=50.90  Aligned_cols=80  Identities=19%  Similarity=0.237  Sum_probs=50.3

Q ss_pred             CCCCcEEEecCcccc-----cccccccCCCCCcEEeccCccc-----------CCc-ccccCCCCCCEEEccCCCCC-cc
Q 038494          566 TEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQL-----------EDV-AAIGQLKKLEILSFRYSDIK-QL  627 (1209)
Q Consensus       566 l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l-----------~~l-~~i~~L~~L~~L~l~~~~~~-~l  627 (1209)
                      +..+..++||+|.|.     .+...|.+-.+|+..+++.-..           .-+ +.+-++++|+..+++.|-+. ..
T Consensus        29 ~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~  108 (388)
T COG5238          29 MDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEF  108 (388)
T ss_pred             hcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCccc
Confidence            556666777777664     2444556666677766665431           112 56667788888888887544 33


Q ss_pred             ch----hccCCCCCCEEeccCC
Q 038494          628 PL----EIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       628 p~----~i~~L~~L~~L~l~~~  645 (1209)
                      |+    -|.+-+.|.||.+.+|
T Consensus       109 ~e~L~d~is~~t~l~HL~l~Nn  130 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNN  130 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecC
Confidence            43    3566778888888874

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=91.10  E-value=0.41  Score=51.19  Aligned_cols=35  Identities=31%  Similarity=0.412  Sum_probs=23.1

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+.+..++....  +..|+|++|.||||++..+....
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            344444443322  68899999999998877777766

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=91.08  E-value=0.24  Score=51.69  Aligned_cols=31  Identities=26%  Similarity=0.452  Sum_probs=27.0

Q ss_pred             HhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          175 LRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       175 L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +...+.++|+++|..|.|||||..++.+...
T Consensus        17 ~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        17 LDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             hhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4456789999999999999999999988754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=91.05  E-value=0.19  Score=49.62  Aligned_cols=23  Identities=43%  Similarity=0.512  Sum_probs=21.0

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      |.|+|++|.||||+|+.++....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999988764

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=91.01  E-value=0.21  Score=50.27  Aligned_cols=26  Identities=35%  Similarity=0.374  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|+|+.|.||||+|+.+++...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            34699999999999999999998754

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=90.98  E-value=0.51  Score=54.25  Aligned_cols=92  Identities=22%  Similarity=0.292  Sum_probs=54.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      .....++|+|..|.|||||++.++......   ..++...-.+...+.+.++..+..-+...      ..+...      
T Consensus       154 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~~~~---~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra  230 (432)
T PRK06793        154 GIGQKIGIFAGSGVGKSTLLGMIAKNAKAD---INVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRA  230 (432)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccCCCC---eEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHH
Confidence            345688999999999999999998765431   23443322333566666665555432211      011111      


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ......+-+++. ++++.||++||+..-
T Consensus       231 ~~~a~~iAEyfr~~G~~VLlilDslTr~  258 (432)
T PRK06793        231 AKLATSIAEYFRDQGNNVLLMMDSVTRF  258 (432)
T ss_pred             HHHHHHHHHHHHHcCCcEEEEecchHHH
Confidence            111223444443 478999999998765

>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=90.93  E-value=0.82  Score=48.28  Aligned_cols=59  Identities=14%  Similarity=0.099  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhchhHHHHhhccccchHHHHHHHHHHHHHHHhhhchhhhhhh
Q 038494           37 SYIAELKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDE   97 (1209)
Q Consensus        37 ~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~~~~~~~d~~~ed~ld~~   97 (1209)
                      +.+.-++.+++.++++++.+|.||++.-+..+..-+..+.++.++-..||++  |.++|.-
T Consensus       314 dSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyev--EYVVDaC  372 (402)
T PF12061_consen  314 DSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEV--EYVVDAC  372 (402)
T ss_pred             chHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhhe--eeeeehh
Confidence            4477889999999999999999999864332334455999999999999999  9999843

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.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=90.87  E-value=0.42  Score=52.91  Aligned_cols=46  Identities=22%  Similarity=0.380  Sum_probs=32.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQ  228 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~  228 (1209)
                      +++.+.|-||+||||+|...+-....++  ..+.-++.....++.+++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L~d~l   47 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAHSLSDVL   47 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccHHHHh
Confidence            6889999999999999999887776542  245666666555544443

...

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=90.85  E-value=0.33  Score=48.41  Aligned_cols=43  Identities=16%  Similarity=0.180  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          162 DSRMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       162 ~gR~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +|....+.++++.+..  .....|.|+|..|+||+.+|+.+++..
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             EeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            5666667777766651  222466799999999999999998854

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=90.85  E-value=1.3  Score=49.10  Aligned_cols=90  Identities=23%  Similarity=0.323  Sum_probs=51.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC-CCcCHHHHHHHHHHHhCCC-------CCCCCCh-----
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT-ENPDVQKIQDKLASDLDLN-------FDLNDSK-----  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s-~~~~~~~l~~~i~~~l~~~-------~~~~~~~-----  245 (1209)
                      ....++|+|..|.|||||.+.++.....    +.....-+. ...++.++.......-+..       ..+.+..     
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~~----~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGTTA----DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCCC----CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            3468899999999999999988865542    233333333 2335555555555432211       0111110     


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. ++|.+|+++||+...
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsltr~  171 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSLTRF  171 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccchHH
Confidence            112223444443 479999999998654

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=90.82  E-value=0.35  Score=50.07  Aligned_cols=29  Identities=24%  Similarity=0.419  Sum_probs=25.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+..+|+|+|++|.||||+|+.+......
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~   50 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHE   50 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45679999999999999999999987753

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=90.82  E-value=0.17  Score=50.63  Aligned_cols=22  Identities=27%  Similarity=0.579  Sum_probs=19.7

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |.|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998775

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=90.80  E-value=0.22  Score=48.93  Aligned_cols=33  Identities=21%  Similarity=0.420  Sum_probs=25.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEE
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVM  215 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~w  215 (1209)
                      +++|+|+.|+||||++..+....+.+ .+...+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~-G~~V~vi   33 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR-GYRVATI   33 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEE
Confidence            57899999999999999999988753 3443333

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=90.80  E-value=2  Score=49.05  Aligned_cols=94  Identities=15%  Similarity=0.194  Sum_probs=68.9

Q ss_pred             hhhHHHHHHHHHHHHh---CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-------CHHHHHHH
Q 038494          161 FDSRMKLFQDVVEALR---NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-------DVQKIQDK  230 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-------~~~~l~~~  230 (1209)
                      -|||+.+++.+.+.|.   +++..+-.|.|.=|.|||.+.+.+.+....++ | .+..+.++...       ....+++.
T Consensus        27 ~VGr~~e~~~l~~~l~~v~~G~s~~kfi~G~YGsGKTf~l~~i~~~A~~~~-f-vvs~v~ls~e~~lh~~~g~~~~~Yr~  104 (416)
T PF10923_consen   27 AVGREREIEALDRDLDRVADGGSSFKFIRGEYGSGKTFFLRLIRERALEKG-F-VVSEVDLSPERPLHGTGGQLEALYRE  104 (416)
T ss_pred             eechHHHHHHHHHHHHHHhCCCCeEEEEEeCCCCcHHHHHHHHHHHHHHcC-C-EEEEEecCCCcccccccccHHHHHHH
Confidence            4799999999998876   56677889999999999999999998887643 4 46677777632       46779999


Q ss_pred             HHHHhCCCCCCCC-ChHHHHHHHHHHH
Q 038494          231 LASDLDLNFDLND-SKPHRAKQLCQRL  256 (1209)
Q Consensus       231 i~~~l~~~~~~~~-~~~~~~~~l~~~l  256 (1209)
                      |++.+........ .....++.+...+
T Consensus       105 l~~nL~t~~~p~G~al~~ild~wi~~~  131 (416)
T PF10923_consen  105 LMRNLSTKTKPEGGALRSILDRWIYNL  131 (416)
T ss_pred             HHHhcCCCCCCCchHHHHHHHHHHHHH
Confidence            9999976654433 2233344443333

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PRK06936 type III secretion system ATPase; Provisional

Probab=90.79  E-value=1  Score=51.71  Aligned_cols=91  Identities=20%  Similarity=0.316  Sum_probs=55.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCChH----
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSKP----  246 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~~----  246 (1209)
                      .+...++|.|..|+|||||.+.+++...    .+.++++-+.+.. .+.++.+..+..-+...      ..+....    
T Consensus       160 ~~Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        160 GEGQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            3456899999999999999999987654    3567777776654 34444444332211110      1111111    


Q ss_pred             --HHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          247 --HRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 --~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                        ...-.+-+++. +++++|+++||+..-
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence              11223555553 589999999998754

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=90.77  E-value=0.75  Score=52.78  Aligned_cols=94  Identities=21%  Similarity=0.217  Sum_probs=59.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh------c-----ccCCEEEEEEcCCCcCHHHHHHHHHHHhC-CCC------C
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME------D-----KVFDKVVMAEVTENPDVQKIQDKLASDLD-LNF------D  240 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~------~-----~~f~~~~wv~~s~~~~~~~l~~~i~~~l~-~~~------~  240 (1209)
                      ....++|.|-+|+|||||+..+++....      .     +.-..++++.+.+.....+.+...+..-+ ...      .
T Consensus       140 ~GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~at  219 (466)
T TIGR01040       140 RGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNL  219 (466)
T ss_pred             cCCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEEC
Confidence            4467899999999999999999877651      0     00015677777777655555555555444 111      1


Q ss_pred             CCCCh------HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          241 LNDSK------PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       241 ~~~~~------~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      .+...      ....-.+-+++.  +++++|+++||+..-
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~  259 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSY  259 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHH
Confidence            11111      122234666666  479999999999654

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK00300 gmk guanylate kinase; Provisional

Probab=90.77  E-value=0.22  Score=52.05  Aligned_cols=26  Identities=35%  Similarity=0.479  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+|+|+|++|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998864

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=90.77  E-value=0.63  Score=46.52  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+.|.|.+|.||||+|..++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            68999999999999999998764

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=90.76  E-value=0.53  Score=47.67  Aligned_cols=117  Identities=20%  Similarity=0.179  Sum_probs=63.0

Q ss_pred             HHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhc-ccCC--EEEEEEcCCCcCHHHHHHHHHHHhC-CCCC------
Q 038494          171 VVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMED-KVFD--KVVMAEVTENPDVQKIQDKLASDLD-LNFD------  240 (1209)
Q Consensus       171 l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~-~~f~--~~~wv~~s~~~~~~~l~~~i~~~l~-~~~~------  240 (1209)
                      +++-+-+...--..|.|++|+||||+.+.+++-.... ..|-  .+.-++-+.+         |+..+. .+..      
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersE---------Iag~~~gvpq~~~g~R~  198 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSE---------IAGCLNGVPQHGRGRRM  198 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccch---------hhccccCCchhhhhhhh
Confidence            4444444444457899999999999999999877642 2232  3333433322         211110 0000      


Q ss_pred             CCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          241 LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       241 ~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      +..+..-...-+......-.+=++|+|.+-..++-.++.-++.           .|-+++.|...-.
T Consensus       199 dVld~cpk~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~~-----------~GVkli~TaHG~~  254 (308)
T COG3854         199 DVLDPCPKAEGMMMAIRSMSPEVIIVDEIGTEEDALAILTALH-----------AGVKLITTAHGNG  254 (308)
T ss_pred             hhcccchHHHHHHHHHHhcCCcEEEEeccccHHHHHHHHHHHh-----------cCcEEEEeecccc
Confidence            0000011222233333334567899999988866555443332           6777777776543

>PRK13975 thymidylate kinase; Provisional

Probab=90.75  E-value=0.22  Score=51.54  Aligned_cols=26  Identities=35%  Similarity=0.516  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+|+|.|+.|+||||+|+.+++....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47999999999999999999988764

>PRK13695 putative NTPase; Provisional

Probab=90.75  E-value=0.34  Score=49.03  Aligned_cols=34  Identities=41%  Similarity=0.492  Sum_probs=25.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEE
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMA  216 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  216 (1209)
                      .|+|+|.+|+|||||++.+++.... ..+....|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~-~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKE-EGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE
Confidence            4789999999999999999887654 224434444

>PHA02774 E1; Provisional

Probab=90.73  E-value=0.43  Score=55.97  Aligned_cols=48  Identities=15%  Similarity=0.205  Sum_probs=35.5

Q ss_pred             HHHHHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc
Q 038494          167 LFQDVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV  218 (1209)
Q Consensus       167 ~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  218 (1209)
                      .+..+..++.. ++...+.|+|++|+|||.+|..+.+-..    -..+.|++.
T Consensus       420 fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~  468 (613)
T PHA02774        420 FLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNS  468 (613)
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEEC
Confidence            45666666654 3356899999999999999999988764    234567765

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=90.70  E-value=0.18  Score=48.51  Aligned_cols=24  Identities=38%  Similarity=0.634  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|+|+|++|+|||||++.+++...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCC
Confidence            378999999999999999987643

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=90.66  E-value=0.22  Score=46.55  Aligned_cols=23  Identities=39%  Similarity=0.612  Sum_probs=20.0

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      |.|+|..|+|||||.+.++....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999986654

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK09099 type III secretion system ATPase; Provisional

Probab=90.66  E-value=0.97  Score=52.25  Aligned_cols=92  Identities=18%  Similarity=0.269  Sum_probs=55.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC------CCCCCh------
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF------DLNDSK------  245 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~------~~~~~~------  245 (1209)
                      .+...++|.|..|.|||||++.++......   ..+++..-.....+.++.+.+...-+...      ..+...      
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a  237 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKA  237 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHH
Confidence            345689999999999999999998655432   24444443344456666666554322111      111111      


Q ss_pred             HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ....-.+-+++. +++++|+++||+...
T Consensus       238 ~~~a~tiAEyfrd~G~~VLl~~DslTr~  265 (441)
T PRK09099        238 AYVATAIAEYFRDRGLRVLLMMDSLTRF  265 (441)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence            112223555554 578999999998765

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=90.66  E-value=1.2  Score=51.69  Aligned_cols=94  Identities=20%  Similarity=0.191  Sum_probs=59.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccC--CEEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCC-C----
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF--DKVVMAEVTENP-DVQKIQDKLASDLDLNF------DLND-S----  244 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~-~----  244 (1209)
                      ....++|.|-+|+|||||+..+++.....+.+  ..++++-+.+.. .+.++++.+...-....      ..+. .    
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~  219 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERI  219 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHH
Confidence            34578999999999999999999876542111  156677776654 45666666654322111      1111 1    


Q ss_pred             -hHHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          245 -KPHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 -~~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                       .......+-+++.  +++++|+++||+..-
T Consensus       220 ~a~~~a~tiAEyfr~d~G~~VLli~DslTR~  250 (458)
T TIGR01041       220 VTPRMALTAAEYLAFEKDMHVLVILTDMTNY  250 (458)
T ss_pred             HHHHHHHHHHHHHHHccCCcEEEEEcChhHH
Confidence             1222234667776  589999999998765

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=90.66  E-value=1.1  Score=49.74  Aligned_cols=30  Identities=23%  Similarity=0.517  Sum_probs=26.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ....+|+|.|.+|+||||++..+......+
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            456899999999999999999999877653

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR03263 guanyl_kin guanylate kinase

Probab=90.63  E-value=0.19  Score=51.24  Aligned_cols=24  Identities=42%  Similarity=0.609  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ++|+|+|+.|+||||+|+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998753

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK05973 replicative DNA helicase; Provisional

Probab=90.61  E-value=0.76  Score=48.40  Aligned_cols=49  Identities=22%  Similarity=0.234  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ...++.|.|.+|+|||++|.+++.....+  =..+++++....  ..++...+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCC--HHHHHHHH
Confidence            34689999999999999999998877543  235666766544  44554443

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=90.59  E-value=0.26  Score=44.39  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIA  201 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~  201 (1209)
                      ...++|+|++|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999999986

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=90.58  E-value=0.85  Score=52.43  Aligned_cols=91  Identities=19%  Similarity=0.268  Sum_probs=51.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC------CCCCCh------H
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF------DLNDSK------P  246 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~------~~~~~~------~  246 (1209)
                      +...++|+|..|+|||||++.++.....   ...++...--....+.++.+..+..-+...      ..+...      .
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~~~---~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~  215 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNTDA---DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA  215 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCCCC---CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence            4468999999999999999888765432   223332222223345555554433322111      111111      1


Q ss_pred             HHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          247 HRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ...-.+-+++. +++.+|+++||+...
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~DslTr~  242 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSVTRF  242 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhHH
Confidence            12223555554 478999999998764

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

---

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	1209
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-51
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-47
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-34
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-27
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-13
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-14
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-10
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	9e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-10
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-10
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	6e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-08
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-09
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	6e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-09
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-09
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-08
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-08
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-08
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	9e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	8e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	1e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	6e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	8e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	8e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	6e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	1e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	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 =  196 bits (498), Expect = 6e-51
 Identities = 110/650 (16%), Positives = 234/650 (36%), Gaps = 146/650 (22%)

Query: 42  LKVQVKELEYKRERVGIPVREATQQRDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAK 101
           +  +  E +Y+ + + + V E     +   KDV D   ++   +S+     II  +D   
Sbjct: 7   MDFETGEHQYQYKDI-LSVFEDAFVDNFDCKDVQDMPKSI---LSKEEIDHIIMSKDAVS 62

Query: 102 KSCFKGFCPNLISRYKLSKQAAKAAEAAASLVGKGNFS-------SVSHRPAPESTEHMQ 154
            +        L   + L  +  +  +     V + N+        +   +P+  +  +++
Sbjct: 63  GTLR------LF--WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114

Query: 155 AKD--------FEAFD-SRMKLFQDVVEALRNDKLN-IIGVHGMGGVGKTTLVKQIA--- 201
            +D        F  ++ SR++ +  + +AL   +    + + G+ G GKT +   +    
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174

Query: 202 --KQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF----DLNDSKPHR---AKQL 252
             +  M+ K+F  + +        V ++  KL   +D N+    D + +   R    +  
Sbjct: 175 KVQCKMDFKIF-WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 253 CQRLTKEK---RVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL 309
            +RL K K     L++L N+            F          +L  + ++ T+R K  +
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWN----AF----------NLSCKILL-TTRFKQ-V 277

Query: 310 TNDMNSQK---IFLIEV---LSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA 363
           T+ +++     I L      L+ +E      K +         Q L  E+       P  
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP-----QDLPREV---LTTNPRR 329

Query: 364 LSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLL 423
           LS +A ++++             ++ N  ++        + IE S N LE  E + +F  
Sbjct: 330 LSIIAESIRD-----GLATWDNWKHVNCDKLT-------TIIESSLNVLEPAEYRKMFDR 377

Query: 424 CTLFGEGTPI--QVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEV 481
            ++F     I   + SL      ++ +V   +     V  +++ L    L+     E  +
Sbjct: 378 LSVFPPSAHIPTILLSL------IWFDVIKSD-----VMVVVNKLHKYSLVEKQPKESTI 426

Query: 482 KMHDVIHVVAVSIASEKLMFSIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPER---- 537
            +   I++        +L   + N   L      I+    I  +    D+          
Sbjct: 427 SIPS-IYL--------ELKVKLENEYALH---RSIVDHYNIPKTFDSDDLIPPYLDQYFY 474

Query: 538 ------LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLIN 591
                 L+  +        + +       +F     D + L     H S+  ++ G ++N
Sbjct: 475 SHIGHHLKNIE--------HPERMTLFRMVFL----DFRFLEQKIRHDSTAWNASGSILN 522

Query: 592 -LQTL-------CLDWCQLED-VAAIGQ-LKKLE--ILSFRYSDIKQLPL 629
            LQ L       C +  + E  V AI   L K+E  ++  +Y+D+ ++ L
Sbjct: 523 TLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIAL 572

>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 = 83.0 bits (204), Expect = 4e-16
 Identities = 96/640 (15%), Positives = 185/640 (28%), Gaps = 201/640 (31%)

Query: 237 LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRR 296
           ++F+  +           +   +  + +  D                + D KD  QD+ +
Sbjct: 7   MDFETGE----------HQYQYKDILSVFEDAFVD------------NFDCKD-VQDMPK 43

Query: 297 RTIILTSRS-KHLL-TNDMNSQKIFLIEVL--SKEEALQFFEKIVGNSAKAS---AFQPL 349
              IL+     H++ + D  S  + L   L   +EE +Q F   V    + +      P+
Sbjct: 44  S--ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF---VEEVLRINYKFLMSPI 98

Query: 350 ADEIVGKCGGLPVALSTVANALKN-----KKLPVW--------KDALTQLRNSNPREIHG 396
             E         + +    + L N      K  V         + AL +LR +    I G
Sbjct: 99  KTEQRQPSMMTRMYIEQR-DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157

Query: 397 MD--------ANVCSSIELSYNF-----------LESDEA--KSLFLLCTLF-------- 427
           +          +VC S ++                 S E   + L  L            
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 428 --GEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALI--DN------LKA---SC--LL 472
                  +++ S+    + L K+       +   + L+   N        A   SC  LL
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKS-------KPYENCLLVLLNVQNAKAWNAFNLSCKILL 270

Query: 473 LDGDAE--DEVKMHDVIHVVAVSIA-------SEKLMFSIPNV--TNLKEEIEKIIQKGA 521
                +  D +      H+     +        + L+    +    +L  E+        
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT---NP 327

Query: 522 IAISIPYGDIQELPERLE------CPQLKLLLL--LANGDSYLEISHLFFEGTEDLKVLS 573
             +SI    I++     +      C +L  ++   L   +   E   +F    + L V  
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA-EYRKMF----DRLSVFP 382

Query: 574 LSGIHFSSLSSSLGHLINLQTLCLDWCQL--EDVAAIGQLKKLEILS--------FRYS- 622
               H           I    L L W  +   DV  +  + KL   S           S 
Sbjct: 383 -PSAH-----------IPTILLSLIWFDVIKSDVMVV--VNKLHKYSLVEKQPKESTISI 428

Query: 623 -----DIKQLPLEIGQLAQLQLLD---LSNCSSLVVIAPNVIS----------------- 657
                ++K        L +  ++D   +        + P  +                  
Sbjct: 429 PSIYLELKVKLENEYALHR-SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487

Query: 658 -KFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE-----IQVQDA--QMLPQ 709
            + +    +++   F +  K+   S A  A    L+ L  L+     I   D   + L  
Sbjct: 488 ERMTLFRMVFLDFRFLE-QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN 546

Query: 710 DLV-FVELPRY-RICIGEAWGIWRANSETSRLVQLHGLEN 747
            ++ F  LP+     I          S+ + L+++  L  
Sbjct: 547 AILDF--LPKIEENLI---------CSKYTDLLRI-ALMA 574

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

 Score = 64.9 bits (157), Expect = 1e-10
 Identities = 104/685 (15%), Positives = 206/685 (30%), Gaps = 207/685 (30%)

Query: 597  LDWCQLEDVAAIGQLKKLEILSFR-YSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNV 655
             D   ++D+      K   ILS      I      +     L+L        L+     +
Sbjct: 33   FDCKDVQDM-----PK--SILSKEEIDHIIMSKDAVSGT--LRLFWT-----LLSKQEEM 78

Query: 656  ISKFSRLEELYMGD-SFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFV 714
            + KF  +EE+   +  F     ++        E +  S +T + I+ +D ++   + VF 
Sbjct: 79   VQKF--VEEVLRINYKF-LMSPIK-------TEQRQPSMMTRMYIEQRD-RLYNDNQVFA 127

Query: 715  ELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGM----KMLLKLTEDIRLE 770
            +    R+       + +A      L++L   +NV  +    G+    K  +         
Sbjct: 128  KYNVSRL--QPYLKLRQA------LLELRPAKNV-LI---DGVLGSGKTWV--------- 166

Query: 771  ELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLIN 830
                  +V                W+           ++   +       E++    L  
Sbjct: 167  ----ALDVCLSYKVQCKMDFKIF-WL-----------NLKNCNSP-----ETV----LEM 201

Query: 831  LEAICH-----SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARN-LLRLQKV---KVA- 880
            L+ + +        R D   SN+K+       +L+ L       N LL L  V   K   
Sbjct: 202  LQKLLYQIDPNWTSRSDHS-SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260

Query: 881  ----SCNKLEMT--------VGPDREKPTTSLGFNEIIADDDT----APKVGIPSSLVNL 924
                SC  L  T        +        +    +  +  D+        +       +L
Sbjct: 261  AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ--DL 318

Query: 925  KVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSM 984
                       +  + E +++    +   K +  + L+ +    L    LE P+  R   
Sbjct: 319  PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV--LE-PAEYR--- 372

Query: 985  IRCPNMKTFSQGILSI-PK----PCKV----------QVTEKEEGELHHWEGNNLNSIMQ 1029
                  K F +  LS+ P     P  +                  +LH        S+++
Sbjct: 373  ------KMFDR--LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK------YSLVE 418

Query: 1030 KYYKEM-IGFRDIWYLQLS-HFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPAN 1087
            K  KE  I    I YL+L         + H              +V  D  N+       
Sbjct: 419  KQPKESTISIPSI-YLELKVKLENEYAL-H------------RSIV--DHYNIPKT---- 458

Query: 1088 LLRCLNNLRRLEVRNCDS---------LEEVLRLEELNADKEHIGPMFPKL-SNLRLIDL 1137
                 ++L    +   D          L+ +   E +         +F  +  + R ++ 
Sbjct: 459  --FDSDDLIPPYL---DQYFYSHIGHHLKNIEHPERMT--------LFRMVFLDFRFLE- 504

Query: 1138 PKLKRF---CNFTGNIIE-LPELR----YLTIENCP-------DMETFISNSTSVLHMTA 1182
             K++      N +G+I+  L +L+    Y+  +N P        +  F+      L  + 
Sbjct: 505  QKIRHDSTAWNASGSILNTLQQLKFYKPYIC-DNDPKYERLVNAILDFLPKIEENLICSK 563

Query: 1183 DNKEAQ-KLKSEENLLV---ANQIQ 1203
                 +  L +E+  +      Q+Q
Sbjct: 564  YTDLLRIALMAEDEAIFEEAHKQVQ 588

>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 = 49.1 bits (116), Expect = 9e-06
 Identities = 55/367 (14%), Positives = 123/367 (33%), Gaps = 99/367 (26%)

Query: 67  RDEIYKDVADWLNN--VDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLISRY------KL 118
           R    K V D+L+         +  + ++  DE ++           L+ +Y       L
Sbjct: 273 RF---KQVTDFLSAATTTHISLDHHSMTLTPDEVKS-----------LLLKYLDCRPQDL 318

Query: 119 SKQAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEA--LR 176
            ++         S++ +      S R    + ++ +  + +   + ++   +V+E    R
Sbjct: 319 PREVLTTNPRRLSIIAE------SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR 372

Query: 177 N--DKLNII--GVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA 232
              D+L++     H             I   ++       ++  +V ++ DV  + +KL 
Sbjct: 373 KMFDRLSVFPPSAH-------------IPTILLS------LIWFDVIKS-DVMVVVNKLH 412

Query: 233 SDLDLNFDLNDSK---PHRAKQLCQRLTKEK---RVLIILDNIWKKLGLEEIGIPFGD-- 284
               +     +S    P    +L  +L  E    R ++   NI K    +++  P+ D  
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472

Query: 285 -------------VDEKD---RK--QDLR--RRTIILTSRSKHL---LTNDMNSQKIFLI 321
                          E+    R    D R   + I   S + +    + N +   K +  
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532

Query: 322 EVLSKEEALQFFEKIVGNSAKASAFQPLADE--IVGKCGGLPVALSTVANALKNKKLPVW 379
            +   +     +E++V        F P  +E  I  K          +  AL  +   ++
Sbjct: 533 YICDNDPK---YERLVNAILD---FLPKIEENLICSKY------TDLLRIALMAEDEAIF 580

Query: 380 KDALTQL 386
           ++A  Q+
Sbjct: 581 EEAHKQV 587

>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 =  177 bits (451), Expect = 2e-47
 Identities = 45/399 (11%), Positives = 114/399 (28%), Gaps = 33/399 (8%)

Query: 117 KLSKQAAKAAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALR 176
                A    +    +V    FS              +       +  +      ++ + 
Sbjct: 89  DYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMC 148

Query: 177 NDKLNIIGVHGMGGVGKTTLVKQIAKQ--VMEDKVFDKVVMAEVTENP---------DVQ 225
           +     + +HG  G GK+ +  Q   +   +    +D +V  + +            D+ 
Sbjct: 149 DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL 208

Query: 226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDV 285
            +       L+     + +     + +C  L      L + D++ +    EE      ++
Sbjct: 209 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQ----EETIRWAQEL 264

Query: 286 DEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASA 345
             +           ++T+R   +      + +   +  L  +E   F E           
Sbjct: 265 RLR----------CLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEK 314

Query: 346 FQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDA----NV 401
            + + ++ +    G P  L     + + K          +L +     +  +      ++
Sbjct: 315 EEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSL 374

Query: 402 CSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDA 461
             +++     L  ++ +S      +   G  I V         +       E   + V  
Sbjct: 375 AMALQRCVEVLSDED-RSALAFAVVMPPGVDIPVKLWSCVI-PVDICSNEEEQLDDEVAD 432

Query: 462 LIDNLKASCLLLDGD--AEDEVKMHDVIHVVAVSIASEK 498
            +  L     LL G        K+  +IH+    +   +
Sbjct: 433 RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQ 471

>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 =  139 bits (351), Expect = 3e-34
 Identities = 76/458 (16%), Positives = 149/458 (32%), Gaps = 65/458 (14%)

Query: 67  RDEIYKDVADWLNNVDEFISEGVAKSIIDDEDRAKKSCFKGFCPNLI-SRYK-LSKQAAK 124
                + V +             A  +I    +     +  F   L+   YK L+     
Sbjct: 36  TISEEEKVRNEPTQQQR------AAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHD 89

Query: 125 AAEAAASLVGKGNFSSVSHRPAPESTEHMQAKDFEAFDSRMKLFQDVVEALR--NDKLNI 182
                +S  GK + S ++        E    +    F +R KL   + + L     +   
Sbjct: 90  GIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEPGW 149

Query: 183 IGVHGMGGVGKTTLVKQIA--KQVMEDKVFDKVVMAEVTENPDVQKIQD--KLASDLDLN 238
           + +HGM G GK+ L  +      ++E      V    V +      +     L + LD +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 209

Query: 239 FDLNDSKPHRAKQLCQRL-----TKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQD 293
              +   P   ++   RL      K  R L+ILD++W    L+                 
Sbjct: 210 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------------- 255

Query: 294 LRRRTIILTSRSKHLLTNDMNSQ-KIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADE 352
             +  I+LT+R K +  + M  +  + +   L KE+ L+     V    K +     A  
Sbjct: 256 -SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM--KKADLPEQAHS 312

Query: 353 IVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNSNPREIHGMDANVCSSI----ELS 408
           I+ +C G P+ +S +   L++     W+  L QL+N   + I    +    ++     +S
Sbjct: 313 IIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 371

Query: 409 YNFLESDEAKSLFLLCTLFGEGTPIQVASLLRY-------GKGLFKNVRTLENARNRVDA 461
              L  D  K  +   ++  +   +    L           + + +      N ++ +  
Sbjct: 372 VEMLREDI-KDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQE---FVN-KSLLFC 426

Query: 462 LIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKL 499
             +                  +HD+           +L
Sbjct: 427 DRNGKSFRY-----------YLHDLQVDFLTEKNCSQL 453

>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 =  120 bits (302), Expect = 1e-27
 Identities = 94/552 (17%), Positives = 186/552 (33%), Gaps = 86/552 (15%)

Query: 161 FDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQ--VMEDKVFDKVV-- 214
           F +R KL   + + L   N +   + ++GM G GK+ L  +  +   ++E      V   
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 215 -MAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT-----KEKRVLIILDN 268
            + +  ++  + K+Q+ L   LD     +   P   ++   RL      K  R L+ILD+
Sbjct: 186 SIGKQDKSGLLMKLQN-LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDD 244

Query: 269 IWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEV-LSKE 327
           +W    L+                      I+LT+R K +  + M  + +  +E  L +E
Sbjct: 245 VWDPWVLKAFDNQC---------------QILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289

Query: 328 EALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLR 387
           + L+     V    K       A  I+ +C G P+ +S +   L++     W   L QL+
Sbjct: 290 KGLEILSLFVNM--KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQ 346

Query: 388 NSNPREIHGMDA----NVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGK 443
           N   + I    +     +  ++ +S   L  D  K  +   ++  +   +    L     
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDI-KDYYTDLSILQKDVKVPTKVLCVL-- 403

Query: 444 GLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVAVSIASEKLMFSI 503
                    +     V+ ++       LL      +       +H + V   +EK     
Sbjct: 404 --------WDLETEEVEDILQEFVNKSLLFCNR--NGKSFCYYLHDLQVDFLTEK----- 448

Query: 504 PNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECP----QLKLLLLLAN-GDSYLEI 558
            N + L++   K++          Y      P++ +C      L   +  AN       +
Sbjct: 449 -NRSQLQDLHRKMVT----QFQRYYQPHTLSPDQEDCMYWYNFLAYHMASANMHKELCAL 503

Query: 559 SHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILS 618
                     +K  +              HLI+           +D A     ++   L+
Sbjct: 504 MFSLDW----IKAKTELV--------GPAHLIHEFVAYRHILDEKDCAVCENFQEFLSLN 551

Query: 619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE 678
                + + P        +QL      +S V     + +K    +E   G  + +W   +
Sbjct: 552 GHL--LGRQPFPNI----VQLGLCEPETSEVYRQAKLQAK----QEGDTGRLYLEWINKK 601

Query: 679 GGSNASLAELKG 690
              N S   ++ 
Sbjct: 602 TIKNLSRLVVRP 613

>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 = 86.9 bits (216), Expect = 2e-18
 Identities = 41/153 (26%), Positives = 68/153 (44%), Gaps = 20/153 (13%)

Query: 531 IQELPERL-ECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSG----------I 577
           + ELP+ + +   L+ L L  N    L   I+ L       L+ LS+            +
Sbjct: 116 LMELPDTMQQFAGLETLTLARNPLRALPASIASL-----NRLRELSIRACPELTELPEPL 170

Query: 578 HFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQ 636
             +  S     L+NLQ+L L+W  +  + A+I  L+ L+ L  R S +  L   I  L +
Sbjct: 171 ASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPK 230

Query: 637 LQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           L+ LDL  C++L    P +    + L+ L + D
Sbjct: 231 LEELDLRGCTALRNY-PPIFGGRAPLKRLILKD 262

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

 Score = 86.2 bits (214), Expect = 4e-18
 Identities = 32/177 (18%), Positives = 62/177 (35%), Gaps = 19/177 (10%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHL- 589
           ++   +      L       N D     S      + + ++ + +G    + +  L    
Sbjct: 25  LRPYHD-----VLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDAT 79

Query: 590 -INLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSS 647
                 L L    L        +L  L+ ++   + + +LP  + Q A L+ L L+    
Sbjct: 80  QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-P 138

Query: 648 LVVIAPNVISKFSRLEELYMGD-----SFPQWDKVEGGSNASLAELKGLSKLTTLEI 699
           L  + P  I+  +RL EL +         P+       S  +  E +GL  L +L +
Sbjct: 139 LRAL-PASIASLNRLRELSIRACPELTELPE----PLASTDASGEHQGLVNLQSLRL 190

>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 = 84.2 bits (209), Expect = 2e-17
 Identities = 38/148 (25%), Positives = 64/148 (43%), Gaps = 11/148 (7%)

Query: 529 GDIQELPERLECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSGIHFSSLSSSL 586
                  E      L+ L L   G   L   I++L     ++LK L +     S+L  ++
Sbjct: 171 ASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANL-----QNLKSLKIRNSPLSALGPAI 225

Query: 587 GHLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFR-YSDIKQLPLEIGQLAQLQLLDLS 643
            HL  L+ L L  C  L +     G    L+ L  +  S++  LPL+I +L QL+ LDL 
Sbjct: 226 HHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLR 285

Query: 644 NCSSLVVIAPNVISKFSRLEELYMGDSF 671
            C +L  + P++I++      + +    
Sbjct: 286 GCVNLSRL-PSLIAQLPANCIILVPPHL 312

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

 Score = 68.0 bits (167), Expect = 4e-12
 Identities = 32/124 (25%), Positives = 48/124 (38%), Gaps = 12/124 (9%)

Query: 531 IQELPERL-ECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSGI-HFSSLSSSL 586
           I+ LP  +     LK L +  +  S L   I HL       L+ L L G     +     
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHL-----PKLEELDLRGCTALRNYPPIF 249

Query: 587 GHLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRY-SDIKQLPLEIGQLAQLQLLDLS 643
           G    L+ L L  C  L  +   I +L +LE L  R   ++ +LP  I QL    ++ + 
Sbjct: 250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVP 309

Query: 644 NCSS 647
               
Sbjct: 310 PHLQ 313

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

 Score = 53.4 bits (129), Expect = 2e-07
 Identities = 46/341 (13%), Positives = 89/341 (26%), Gaps = 84/341 (24%)

Query: 556 LEISHLFFEGTEDLKVLSLSGI-HFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKL 614
           +  SH     +   + L   G          L           +                
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHS--AWRQANSNNP 58

Query: 615 EILSFRYSDIKQLPLEIGQLAQLQL--LDLSNCSSLVVIAPNVISKFSRLEELYMGD--- 669
           +I +     +K     +    Q     L+L +   L    P+   + S L+ + +     
Sbjct: 59  QIETRTGRALKATADLLEDATQPGRVALELRSVP-LPQF-PDQAFRLSHLQHMTIDAAGL 116

Query: 670 -SFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWG 728
              P               ++  + L TL +     + LP              I     
Sbjct: 117 MELP-------------DTMQQFAGLETLTLARNPLRALPAS------------IA---- 147

Query: 729 IWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGF 788
                        L+ L               L +     L EL           + +G 
Sbjct: 148 ------------SLNRLRE-------------LSIRACPELTELPEPLASTDASGEHQGL 182

Query: 789 PRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLY--KLINL-EAICHSQLREDQFF 845
             L+ L +   + I  +  S+  +       L+SL +    L  L  AI H         
Sbjct: 183 VNLQSLRL-EWTGIRSLPASIANLQN-----LKSLKIRNSPLSALGPAIHH--------L 228

Query: 846 SNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLE 886
             L+ +++  C  L++            L+++ +  C+ L 
Sbjct: 229 PKLEELDLRGCTALRNY-PPIFG-GRAPLKRLILKDCSNLL 267

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

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 24/107 (22%), Positives = 36/107 (33%), Gaps = 16/107 (14%)

Query: 531 IQELPERL-ECPQLKLLLLLANGDSYL-----EISHLFFEGTEDLKVLSLSGI-HFSSLS 583
           +  L   +   P+L+ L L   G + L                 LK L L    +  +L 
Sbjct: 218 LSALGPAIHHLPKLEELDL--RGCTALRNYPPIFGGR-----APLKRLILKDCSNLLTLP 270

Query: 584 SSLGHLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRYSDIKQLP 628
             +  L  L+ L L  C  L  + + I QL    I+        QL 
Sbjct: 271 LDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLD 317

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

 Score = 76.2 bits (188), Expect = 6e-15
 Identities = 39/173 (22%), Positives = 69/173 (39%), Gaps = 14/173 (8%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           +Q LP  +  +  QL  L L +NG S+         GT  LK L LS     ++SS+   
Sbjct: 40  LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 99

Query: 589 LINLQTLCLDWCQLEDVAAIG---QLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSN 644
           L  L+ L      L+ ++       L+ L  L   ++  +     I   L+ L++L ++ 
Sbjct: 100 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG 159

Query: 645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
            S      P++ ++   L  L +     Q +++   +         LS L  L
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDLSQC--QLEQLSPTA------FNSLSSLQVL 204

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

 Score = 72.7 bits (179), Expect = 2e-14
 Identities = 25/159 (15%), Positives = 59/159 (37%), Gaps = 20/159 (12%)

Query: 542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQ 601
                LL  +  + +  + +       L  ++L+ I+ + L+  + +  N++ L ++   
Sbjct: 24  AYLNGLLGQSSTANITEAQM-----NSLTYITLANINVTDLTG-IEYAHNIKDLTINNIH 77

Query: 602 LEDVAAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFS 660
             +   I  L  LE L     D+    +  +  L  L LLD+S+  +        I+   
Sbjct: 78  ATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHS-AHDDSILTKINTLP 136

Query: 661 RLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI 699
           ++  + +              N ++ ++  L  L  L+ 
Sbjct: 137 KVNSIDL------------SYNGAITDIMPLKTLPELKS 163

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

 Score = 48.8 bits (117), Expect = 2e-06
 Identities = 19/107 (17%), Positives = 44/107 (41%), Gaps = 7/107 (6%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG--IHFSSLSSSLGHLINLQTLCLD 598
             L+ L ++    +  +I +L   G   L +L +S      S L+  +  L  + ++ L 
Sbjct: 88  SNLERLRIMGKDVTSDKIPNL--SGLTSLTLLDISHSAHDDSILTK-INTLPKVNSIDLS 144

Query: 599 WC-QLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
           +   + D+  +  L +L+ L+ ++  +      I    +L  L   +
Sbjct: 145 YNGAITDIMPLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFS 190

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

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 16/116 (13%), Positives = 34/116 (29%), Gaps = 34/116 (29%)

Query: 585 SLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
           +   + +L  + L    + D+  I     ++ L+            I  L+ L+ L +  
Sbjct: 39  TEAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMG 97

Query: 645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
                      ++                        +  +  L GL+ LT L+I 
Sbjct: 98  ---------KDVT------------------------SDKIPNLSGLTSLTLLDIS 120

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

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 15/88 (17%), Positives = 28/88 (31%), Gaps = 5/88 (5%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWC 600
             L LL +  +      ++ +       +  + LS     +    L  L  L++L + + 
Sbjct: 112 TSLTLLDISHSAHDDSILTKI--NTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFD 169

Query: 601 QLEDVAAIGQLKKLEILSFRY---SDIK 625
            + D   I    KL  L          K
Sbjct: 170 GVHDYRGIEDFPKLNQLYAFSQTIGGKK 197

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

 Score = 72.6 bits (179), Expect = 1e-13
 Identities = 56/379 (14%), Positives = 130/379 (34%), Gaps = 101/379 (26%)

Query: 502 SIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLE-ISH 560
            I    +L E I  ++QK ++   +   +            +  L++     + ++ I +
Sbjct: 14  QIFPDADLAEGIRAVLQKASVTDVVTQEE---------LESITKLVVAGEKVASIQGIEY 64

Query: 561 LFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFR 620
           L      +L+ L+L+G   + +S  L +L+ L  L +   ++ D++A+  L  L  L   
Sbjct: 65  L-----TNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLN 118

Query: 621 YSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGG 680
             +I  +   +  L ++  L+L    +L  ++P  +S  + L  L + +           
Sbjct: 119 EDNISDIS-PLANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTE----------- 164

Query: 681 SN--ASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSR 738
            +    +  +  L+ L +L +                                 N     
Sbjct: 165 -SKVKDVTPIANLTDLYSLSLN-------------------------------YN----- 187

Query: 739 LVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVER 798
             Q+  +  +++L                 L   T   N + ++       RL  L +  
Sbjct: 188 --QIEDISPLASL---------------TSLHYFTAYVNQITDITPVANMTRLNSLKIGN 230

Query: 799 C--SEILHIVGSVGRVHRKVFPLLESLSLY--KLINLEAICH-SQLREDQFFSNLKIIEV 853
              +++  +              L  L +   ++ ++ A+   ++L+     SN +I ++
Sbjct: 231 NKITDLSPLAN---------LSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSN-QISDI 280

Query: 854 ESCDKLKHLFSFSIARNLL 872
              + L  L S  +  N L
Sbjct: 281 SVLNNLSQLNSLFLNNNQL 299

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

 Score = 71.4 bits (176), Expect = 3e-13
 Identities = 28/213 (13%), Positives = 71/213 (33%), Gaps = 34/213 (15%)

Query: 500 MFSIPNVTNLKE------EIEKIIQKGAIA----ISIPYGDIQELPERLECPQLKLLLLL 549
           +F   ++            +  ++ +  +     + +    +  +        L+ L L 
Sbjct: 15  IFPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNL- 73

Query: 550 ANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAI 608
               +  +I+ +        L  L +     + +S+ L +L NL+ L L+   + D++ +
Sbjct: 74  ----NGNQITDISPLSNLVKLTNLYIGTNKITDISA-LQNLTNLRELYLNEDNISDISPL 128

Query: 609 GQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG 668
             L K+  L+   +        +  +  L  L ++    +  + P  I+  + L  L + 
Sbjct: 129 ANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTP--IANLTDLYSLSLN 185

Query: 669 DSFPQWDKVEGGSN--ASLAELKGLSKLTTLEI 699
                        N    ++ L  L+ L     
Sbjct: 186 Y------------NQIEDISPLASLTSLHYFTA 206

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

 Score = 69.5 bits (171), Expect = 1e-12
 Identities = 36/172 (20%), Positives = 64/172 (37%), Gaps = 23/172 (13%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           I+++        L       N     +I+ +        L  L +     + LS  L +L
Sbjct: 189 IEDISPLASLTSLHYFTAYVN-----QITDITPVANMTRLNSLKIGNNKITDLSP-LANL 242

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
             L  L +   Q+ D+ A+  L KL++L+   + I  +   +  L+QL  L L+N   L 
Sbjct: 243 SQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDIS-VLNNLSQLNSLFLNNNQ-LG 300

Query: 650 VIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEI 699
                VI   + L  L++              N    +  L  LSK+ + + 
Sbjct: 301 NEDMEVIGGLTNLTTLFLSQ------------NHITDIRPLASLSKMDSADF 340

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

 Score = 63.3 bits (155), Expect = 2e-10
 Identities = 28/141 (19%), Positives = 56/141 (39%), Gaps = 11/141 (7%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           I ++       +L  L +  N     +I+ L        L  L +     S +++ +  L
Sbjct: 211 ITDITPVANMTRLNSLKIGNN-----KITDLSPLANLSQLTWLEIGTNQISDINA-VKDL 264

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSL 648
             L+ L +   Q+ D++ +  L +L  L    + +    +E IG L  L  L LS    +
Sbjct: 265 TKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HI 323

Query: 649 VVIAPNVISKFSRLEELYMGD 669
             I P  ++  S+++     +
Sbjct: 324 TDIRP--LASLSKMDSADFAN 342

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

 Score = 46.8 bits (112), Expect = 3e-05
 Identities = 47/292 (16%), Positives = 95/292 (32%), Gaps = 49/292 (16%)

Query: 592 LQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVI 651
             TL      +  +     L +      + + +  +     +L  +  L ++    +  I
Sbjct: 2   AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVV-TQEELESITKLVVAGE-KVASI 59

Query: 652 APNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI------QVQDAQ 705
               I   + LE L +  +              ++ L  L KLT L I       +   Q
Sbjct: 60  QG--IEYLTNLEYLNLNGN----------QITDISPLSNLVKLTNLYIGTNKITDISALQ 107

Query: 706 MLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTE 765
            L   L  + L    I            S+ S L  L  + +++ L  N+ +  L  L+ 
Sbjct: 108 NLTN-LRELYLNEDNI------------SDISPLANLTKMYSLN-LGANHNLSDLSPLSN 153

Query: 766 DIRLEELTGVQNVVHELDDGEGFPRLKHLWVERC--SEILHIVGSVGRVHRKVFPLLESL 823
              L  LT  ++ V ++        L  L +      +I  +              L   
Sbjct: 154 MTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLAS---------LTSLHYF 204

Query: 824 SLY--KLINLEAICH-SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLL 872
           + Y  ++ ++  + + ++L   +  +N KI ++     L  L    I  N +
Sbjct: 205 TAYVNQITDITPVANMTRLNSLKIGNN-KITDLSPLANLSQLTWLEIGTNQI 255

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

 Score = 43.7 bits (104), Expect = 3e-04
 Identities = 23/98 (23%), Positives = 41/98 (41%), Gaps = 7/98 (7%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLS-SSLGH 588
           I ++    +  +LK+L + +N     +IS +        L  L L+     +     +G 
Sbjct: 255 ISDINAVKDLTKLKMLNVGSN-----QISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGG 309

Query: 589 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQ 626
           L NL TL L    + D+  +  L K++   F    IK+
Sbjct: 310 LTNLTTLFLSQNHITDIRPLASLSKMDSADFANQVIKK 347

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 73.1 bits (180), Expect = 3e-13
 Identities = 30/136 (22%), Positives = 55/136 (40%), Gaps = 4/136 (2%)

Query: 538 LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL 597
           ++ P L+ L L  NG S+         GT  LK L LS     ++SS+   L  L+ L  
Sbjct: 344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDF 403

Query: 598 DWCQLE---DVAAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAP 653
               L+   + +    L+ L  L   ++  +         L+ L++L ++  S      P
Sbjct: 404 QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP 463

Query: 654 NVISKFSRLEELYMGD 669
           ++ ++   L  L +  
Sbjct: 464 DIFTELRNLTFLDLSQ 479

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 67.4 bits (165), Expect = 2e-11
 Identities = 28/106 (26%), Positives = 39/106 (36%), Gaps = 5/106 (4%)

Query: 568 DLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDI 624
             K L LS      L S S      LQ L L  C+++ +   A   L  L  L    + I
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 625 KQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           + L L     L+ LQ L      +L  +    I     L+EL +  
Sbjct: 89  QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH 133

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 61.6 bits (150), Expect = 1e-09
 Identities = 25/144 (17%), Positives = 51/144 (35%), Gaps = 8/144 (5%)

Query: 530 DIQELPER-LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLG 587
            +  +    L   QL+ L    +    +      F    +L  L +S  H     +    
Sbjct: 384 GVITMSSNFLGLEQLEHLDFQHSNLKQM-SEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 442

Query: 588 HLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLS 643
            L +L+ L +     ++        +L+ L  L      ++QL P     L+ LQ+L++S
Sbjct: 443 GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS 502

Query: 644 NCSSLVVIAPNVISKFSRLEELYM 667
           +  +   +        + L+ L  
Sbjct: 503 HN-NFFSLDTFPYKCLNSLQVLDY 525

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 60.4 bits (147), Expect = 2e-09
 Identities = 35/136 (25%), Positives = 59/136 (43%), Gaps = 14/136 (10%)

Query: 540 CPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTL 595
            P+L++L L     S  EI  +    ++    L  L L+G    SL+  +   L +LQ L
Sbjct: 51  FPELQVLDL-----SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL 105

Query: 596 CLDWCQLEDV--AAIGQLKKLEILSFRYSDIK--QLPLEIGQLAQLQLLDLSNCSSLVVI 651
                 L  +    IG LK L+ L+  ++ I+  +LP     L  L+ LDLS+   +  I
Sbjct: 106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSI 164

Query: 652 APNVISKFSRLEELYM 667
               +    ++  L +
Sbjct: 165 YCTDLRVLHQMPLLNL 180

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 58.1 bits (141), Expect = 1e-08
 Identities = 35/200 (17%), Positives = 71/200 (35%), Gaps = 17/200 (8%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG--IHFSSLSSSL 586
           IQ L          L+ L+ +    +   + +      + LK L+++   I    L    
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLA--SLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 587 GHLINLQTLCLDWCQLEDV--AAIGQLKKLEI----LSFRYSDIKQLPLEIGQLAQLQLL 640
            +L NL+ L L   +++ +    +  L ++ +    L    + +  +     +  +L  L
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKL 205

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYM-GDSFPQWDKVEGGSNASLAELKGLS----KLT 695
            L N    + +    I   + LE   +    F     +E    ++L  L  L+    +L 
Sbjct: 206 TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLA 265

Query: 696 TLEIQVQDAQMLPQDLVFVE 715
            L+  + D   L   L  V 
Sbjct: 266 YLDYYLDDIIDLFNCLTNVS 285

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 55.0 bits (133), Expect = 1e-07
 Identities = 35/139 (25%), Positives = 53/139 (38%), Gaps = 15/139 (10%)

Query: 540 CPQLKLLLLLANGDSYLEISHLF---FEGTEDLKVLSLSGIHFSS--LSSSLGHLINLQT 594
              L  L +     S+      F   F G   L+VL ++G  F    L      L NL  
Sbjct: 420 LRNLIYLDI-----SHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF 474

Query: 595 LCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVI 651
           L L  CQLE +   A   L  L++L+  +++   L       L  LQ+LD S  + ++  
Sbjct: 475 LDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL-NHIMTS 533

Query: 652 APNVISK-FSRLEELYMGD 669
               +    S L  L +  
Sbjct: 534 KKQELQHFPSSLAFLNLTQ 552

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 52.3 bits (126), Expect = 7e-07
 Identities = 30/185 (16%), Positives = 51/185 (27%), Gaps = 38/185 (20%)

Query: 543 LKLLLLLANGDSYLEISHL----FFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD 598
           L  L +     +YL+         F    ++   SL  +    +     +    Q L L 
Sbjct: 254 LCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKD-FSYNFGWQHLELV 312

Query: 599 WCQLEDV---------------------AAIGQLKKLEILSFRYSDIK---QLPLEIGQL 634
            C+                          +   L  LE L    + +             
Sbjct: 313 NCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGT 372

Query: 635 AQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKL 694
             L+ LDLS    + +   +      +LE L    S      ++  S  S+     L  L
Sbjct: 373 TSLKYLDLSFNGVITM--SSNFLGLEQLEHLDFQHS-----NLKQMSEFSV--FLSLRNL 423

Query: 695 TTLEI 699
             L+I
Sbjct: 424 IYLDI 428

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 29/193 (15%), Positives = 48/193 (24%), Gaps = 46/193 (23%)

Query: 541 PQLKLL-LLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-------SSSLGHLINL 592
             L++  L+L    +   +        E L  L++     + L             L N+
Sbjct: 225 AGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNV 284

Query: 593 QTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP--------------------LEIG 632
            +  L    +E V         + L        Q P                        
Sbjct: 285 SSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEV 344

Query: 633 QLAQLQLLDLSNCS-SLVVIAPNVISKFSRLEELYMGD----SFPQWDKVEGGSNASLAE 687
            L  L+ LDLS    S            + L+ L +      +                 
Sbjct: 345 DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS-------------N 391

Query: 688 LKGLSKLTTLEIQ 700
             GL +L  L+ Q
Sbjct: 392 FLGLEQLEHLDFQ 404

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

 Score = 73.2 bits (180), Expect = 3e-13
 Identities = 31/141 (21%), Positives = 56/141 (39%), Gaps = 4/141 (2%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
                  ++ P L+ L L  NG S+         GT  LK L LS     ++SS+   L 
Sbjct: 337 GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLE 396

Query: 591 NLQTLCLDWCQLEDVAAIG---QLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCS 646
            L+ L      L+ ++       L+ L  L   ++  +     I   L+ L++L ++  S
Sbjct: 397 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNS 456

Query: 647 SLVVIAPNVISKFSRLEELYM 667
                 P++ ++   L  L +
Sbjct: 457 FQENFLPDIFTELRNLTFLDL 477

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

 Score = 63.2 bits (154), Expect = 4e-10
 Identities = 28/107 (26%), Positives = 39/107 (36%), Gaps = 5/107 (4%)

Query: 567 EDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSD 623
              K L LS      L S S      LQ L L  C+++ +   A   L  L  L    + 
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP 87

Query: 624 IKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           I+ L L     L+ LQ L      +L  +    I     L+EL +  
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH 133

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

 Score = 62.0 bits (151), Expect = 7e-10
 Identities = 52/288 (18%), Positives = 94/288 (32%), Gaps = 50/288 (17%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGIHFSS 581
           +I  G  Q L        L  L+L  N      I  L    F G   L+ L     + +S
Sbjct: 66  TIEDGAYQSLS------HLSTLILTGN-----PIQSLALGAFSGLSSLQKLVAVETNLAS 114

Query: 582 LSS-SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQ 636
           L +  +GHL  L+ L +    ++          L  LE L    + I+ +    +  L Q
Sbjct: 115 LENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQ 174

Query: 637 LQL----LDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLS 692
           + L    LDLS    +  I P    +   L +L + ++F   + ++         ++GL+
Sbjct: 175 MPLLNLSLDLSLN-PMNFIQPGAFKEIR-LHKLTLRNNFDSLNVMKT-------CIQGLA 225

Query: 693 KLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLL 752
            L    + + + +         +                  S    L  L   E     L
Sbjct: 226 GLEVHRLVLGEFRNEGN---LEKFD---------------KSALEGLCNLTIEEFRLAYL 267

Query: 753 ENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCS 800
           + Y   ++        +   + V   +  + D       +HL +  C 
Sbjct: 268 DYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK 315

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

 Score = 61.3 bits (149), Expect = 1e-09
 Identities = 28/174 (16%), Positives = 56/174 (32%), Gaps = 18/174 (10%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           I+ + +       + L L+       +         + LK L+ +     +  S +  L 
Sbjct: 294 IERVKDFSYNFGWQHLELV-----NCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVD-LP 347

Query: 591 NLQTLCLDWCQLEDVA----AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS 646
           +L+ L L    L        +      L+ L   ++ +  +      L QL+ LD  + +
Sbjct: 348 SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN 407

Query: 647 SLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
              +   +V      L  L +  +         G         GLS L  L++ 
Sbjct: 408 LKQMSEFSVFLSLRNLIYLDISHT--HTRVAFNGI------FNGLSSLEVLKMA 453

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

 Score = 54.7 bits (132), Expect = 1e-07
 Identities = 31/120 (25%), Positives = 53/120 (44%), Gaps = 6/120 (5%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLE-ISHLFFEGTEDLKVLSLSG--IHFSSLSSSLG 587
           ++++ E      L+ L+ L    ++     +  F G   L+VL ++G     + L     
Sbjct: 408 LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFT 467

Query: 588 HLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSN 644
            L NL  L L  CQLE +   A   L  L++L+   + +K +P  I  +L  LQ + L  
Sbjct: 468 ELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHT 527

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

 Score = 53.6 bits (129), Expect = 3e-07
 Identities = 23/149 (15%), Positives = 56/149 (37%), Gaps = 16/149 (10%)

Query: 531 IQELPER-LECPQLKLLLLLANGDSYLEISHL----FFEGTEDLKVLSLSGIHFSSL-SS 584
           +  +    L   QL+ L        +  +  +     F    +L  L +S  H     + 
Sbjct: 385 VITMSSNFLGLEQLEHLDF-----QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG 439

Query: 585 SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLL 640
               L +L+ L +     ++        +L+ L  L      ++QL       L+ LQ+L
Sbjct: 440 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 499

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           ++++   L  +   +  + + L+++++  
Sbjct: 500 NMASNQ-LKSVPDGIFDRLTSLQKIWLHT 527

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

 Score = 71.6 bits (176), Expect = 9e-13
 Identities = 23/176 (13%), Positives = 55/176 (31%), Gaps = 18/176 (10%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           +   P R +   L    + ++      I        +D + +     + + +S ++  L 
Sbjct: 150 VDYDP-REDFSDLIKDCINSD-PQQKSIKKSSRITLKDTQ-IGQLSNNITFVSKAVMRLT 206

Query: 591 NLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSL 648
            L+   +              + +  E         K   L+   L  L  +++ NC +L
Sbjct: 207 KLRQFYMGNSPFVAENICEAWENENSEYAQQ----YKTEDLKWDNLKDLTDVEVYNCPNL 262

Query: 649 VVIAPNVISKFSRLEELYMGD----SFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
             + P  +     ++ + +      S  Q          +LA+     K+  + I 
Sbjct: 263 TKL-PTFLKALPEMQLINVACNRGISGEQLK----DDWQALADAPVGEKIQIIYIG 313

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

 Score = 64.3 bits (157), Expect = 2e-10
 Identities = 19/145 (13%), Positives = 46/145 (31%), Gaps = 22/145 (15%)

Query: 569 LKVLSLSGIHFSSLSSSL-GHLINLQTLCLDWCQLE---DVAAIGQLKKLEILSFRY--- 621
           L  L+L+    + + ++  G    ++ L     +L+   ++     +  +  + F Y   
Sbjct: 355 LASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEI 414

Query: 622 -----SDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFP 672
                 +   L     +   +  ++LSN   +      + S  S L  + +        P
Sbjct: 415 GSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSINLMGNMLTEIP 473

Query: 673 QWDKVEGGSNASLAELKGLSKLTTL 697
                +          K    LT++
Sbjct: 474 -----KNSLKDENENFKNTYLLTSI 493

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

 Score = 63.9 bits (156), Expect = 2e-10
 Identities = 19/148 (12%), Positives = 54/148 (36%), Gaps = 28/148 (18%)

Query: 569 LKVLSLSGIHFSSLS---------SSLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEI 616
           +++++++     S           +       +Q + + +  L+      ++ ++KKL +
Sbjct: 275 MQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGM 334

Query: 617 LSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFP 672
           L   Y+ ++      G   +L  L+L+    +  I  N      ++E L          P
Sbjct: 335 LECLYNQLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSFAHNKLKYIP 393

Query: 673 QWDKVEGGSNASLAELKGLSKLTTLEIQ 700
                      ++ + K +S ++ ++  
Sbjct: 394 -----------NIFDAKSVSVMSAIDFS 410

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

 Score = 58.5 bits (142), Expect = 1e-08
 Identities = 23/158 (14%), Positives = 48/158 (30%), Gaps = 13/158 (8%)

Query: 525 SIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS 583
            IP   +++  E       L  + L  N  + L            L  + LS   FS   
Sbjct: 471 EIPKNSLKDENENFKNTYLLTSIDLRFNKLTKL-SDDFRATTLPYLVGIDLSYNSFSKFP 529

Query: 584 SSLGHLINLQTLCLDWCQLEDV--------AAIGQLKKLEILSFRYSDIKQLPLEIGQLA 635
           +   +   L+   +   +              I     L  L    +DI+++  +I    
Sbjct: 530 TQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--TP 587

Query: 636 QLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQ 673
            + +LD+ +    + I  + +  +       +     Q
Sbjct: 588 NISVLDIKDN-PNISIDLSYVCPYIEAGMYMLFYDKTQ 624

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

 Score = 57.0 bits (138), Expect = 3e-08
 Identities = 25/162 (15%), Positives = 50/162 (30%), Gaps = 19/162 (11%)

Query: 525 SIPYGDIQELPERLE-CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG------- 576
           S+   +   L         +  + L  N  S      LF  G+  L  ++L G       
Sbjct: 416 SVDGKNFDPLDPTPFKGINVSSINLSNNQISKF-PKELFSTGSP-LSSINLMGNMLTEIP 473

Query: 577 -IHFSSLSSSLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEIG 632
                  + +  +   L ++ L + +L  +        L  L  +   Y+   + P +  
Sbjct: 474 KNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPL 533

Query: 633 QLAQLQLLDLSNCSSLVV-----IAPNVISKFSRLEELYMGD 669
             + L+   + N             P  I+    L +L +G 
Sbjct: 534 NSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGS 575

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

 Score = 50.4 bits (121), Expect = 3e-06
 Identities = 15/146 (10%), Positives = 37/146 (25%), Gaps = 18/146 (12%)

Query: 557 EISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKL 614
            IS    +  +    +                  +L   C++    +     +     K 
Sbjct: 128 GISANMSDEQKQKMRMHYQKTFVDYDP--REDFSDLIKDCINSDPQQKSIKKSSRITLKD 185

Query: 615 EILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQW 674
             +    ++I  +   + +L +L+   + N    V        +    E      +    
Sbjct: 186 TQIGQLSNNITFVSKAVMRLTKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKTED-- 242

Query: 675 DKVEGGSNASLAELKGLSKLTTLEIQ 700
                       +   L  LT +E+ 
Sbjct: 243 -----------LKWDNLKDLTDVEVY 257

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

 Score = 71.1 bits (174), Expect = 2e-12
 Identities = 30/240 (12%), Positives = 72/240 (30%), Gaps = 26/240 (10%)

Query: 481 VKMHDVIHVVAVSIASEKLMFSIP----NVTNLKE---------EIEKIIQKGAIAISIP 527
           V + +   V  +S+A       +P     +T LK             ++     +   + 
Sbjct: 317 VDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMS 376

Query: 528 YGDIQELPERLE------CPQLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSGIH-- 578
                 +    +        +L L  LL +  +   E+  +  +    LK   +  +   
Sbjct: 377 EERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNR 436

Query: 579 FSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQ 638
            + +S ++  L  LQ +               +   +  S      +   L    L  L 
Sbjct: 437 ITFISKAIQRLTKLQIIYFANSPFTYD--NIAVDWEDANSDYAKQYENEELSWSNLKDLT 494

Query: 639 LLDLSNCSSLVVIAPNVISKFSRLEELYMGD-SFPQWDKVEGGSNASLAELKGLSKLTTL 697
            ++L NC ++  + P+ +     L+ L +         +++        +     K+   
Sbjct: 495 DVELYNCPNMTQL-PDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF 553

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

 Score = 66.1 bits (161), Expect = 6e-11
 Identities = 26/152 (17%), Positives = 58/152 (38%), Gaps = 15/152 (9%)

Query: 531 IQELPERL-ECPQLKLLLLLAN--------GDSYLEISHLFFEGTEDLKVLSLSGIHFSS 581
           + +LP+ L + P+L+ L +  N           +  ++     G + +++  +   +   
Sbjct: 504 MTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPK-IQIFYMGYNNLEE 562

Query: 582 L--SSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLA-QLQ 638
              S+SL  ++ L  L     ++  + A G   KL  L   Y+ I+++P +      Q++
Sbjct: 563 FPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE 622

Query: 639 LLDLSNCSSLVVIAPNV-ISKFSRLEELYMGD 669
            L  S+   L  I           +  +    
Sbjct: 623 GLGFSHN-KLKYIPNIFNAKSVYVMGSVDFSY 653

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

 Score = 58.0 bits (140), Expect = 2e-08
 Identities = 23/159 (14%), Positives = 45/159 (28%), Gaps = 24/159 (15%)

Query: 530 DIQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSG--------IH 578
           +I    +  +      + L  N     EI       F     +  + LS           
Sbjct: 662 NISCSMDDYKGINASTVTLSYN-----EIQKFPTELFATGSPISTIILSNNLMTSIPENS 716

Query: 579 FSSLSSSLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEIGQLA 635
                 +  +   L T+ L + +L  +        L  L  +   Y+     P +    +
Sbjct: 717 LKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSS 776

Query: 636 QLQLLDLSNCSSLVV-----IAPNVISKFSRLEELYMGD 669
           QL+   + +             P  I+    L +L +G 
Sbjct: 777 QLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS 815

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

 Score = 70.0 bits (172), Expect = 2e-12
 Identities = 60/338 (17%), Positives = 107/338 (31%), Gaps = 68/338 (20%)

Query: 541 PQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
            +    +L         ++        + +  L    +   S+   + +L NL  +    
Sbjct: 24  AEKMKTVLGKT-----NVTDTVSQTDLDQVTTLQADRLGIKSIDG-VEYLNNLTQINFSN 77

Query: 600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKF 659
            QL D+  +  L KL  +    + I  +   +  L  L  L L N   +  I P  +   
Sbjct: 78  NQLTDITPLKNLTKLVDILMNNNQIADIT-PLANLTNLTGLTLFNN-QITDIDP--LKNL 133

Query: 660 SRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELP 717
           + L  L +             SN  + ++ L GL+ L  L    Q   + P       L 
Sbjct: 134 TNLNRLEL------------SSNTISDISALSGLTSLQQLSFGNQVTDLKP----LANLT 177

Query: 718 RYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQN 777
                                L +L    N  + +       L KLT    LE L    N
Sbjct: 178 --------------------TLERLDISSNKVSDISV-----LAKLT---NLESLIATNN 209

Query: 778 VVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLY--KLINLEAIC 835
            + ++        L  L +      L  +G++          L  L L   ++ NL  + 
Sbjct: 210 QISDITPLGILTNLDELSLNGNQ--LKDIGTLAS-----LTNLTDLDLANNQISNLAPLS 262

Query: 836 H-SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLL 872
             ++L E +  +N +I  +     L  L +  +  N L
Sbjct: 263 GLTKLTELKLGAN-QISNISPLAGLTALTNLELNENQL 299

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

 Score = 67.3 bits (165), Expect = 1e-11
 Identities = 39/173 (22%), Positives = 67/173 (38%), Gaps = 25/173 (14%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           + ++    +   L+ L+   N     +IS +       +L  LSL+G     + + L  L
Sbjct: 189 VSDISVLAKLTNLESLIATNN-----QISDITPLGILTNLDELSLNGNQLKDIGT-LASL 242

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
            NL  L L   Q+ ++A +  L KL  L    + I  +   +  L  L  L+L+    L 
Sbjct: 243 TNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNIS-PLAGLTALTNLELNENQ-LE 300

Query: 650 VIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEIQ 700
            I+P  IS    L  L +              N  + ++ +  L+KL  L   
Sbjct: 301 DISP--ISNLKNLTYLTLY------------FNNISDISPVSSLTKLQRLFFY 339

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

 Score = 61.9 bits (151), Expect = 6e-10
 Identities = 27/137 (19%), Positives = 48/137 (35%), Gaps = 9/137 (6%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLE-ISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           ++++        L  L L  N  S +  +S L       L+ L       S +SS L +L
Sbjct: 299 LEDISPISNLKNLTYLTLYFNNISDISPVSSL-----TKLQRLFFYNNKVSDVSS-LANL 352

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
            N+  L     Q+ D+  +  L ++  L          P+       + + +     +  
Sbjct: 353 TNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKAN--VSIPNTVKNVTGA 410

Query: 650 VIAPNVISKFSRLEELY 666
           +IAP  IS      E  
Sbjct: 411 LIAPATISDGGSYTEPD 427

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

 Score = 59.2 bits (144), Expect = 5e-09
 Identities = 57/301 (18%), Positives = 100/301 (33%), Gaps = 53/301 (17%)

Query: 584 SSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLS 643
            +   L       L    + D  +   L ++  L      IK +   +  L  L  ++ S
Sbjct: 18  FTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFS 76

Query: 644 NCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEI-- 699
           N   L  I P  +   ++L ++ M +            N  A +  L  L+ LT L +  
Sbjct: 77  NN-QLTDITP--LKNLTKLVDILMNN------------NQIADITPLANLTNLTGLTLFN 121

Query: 700 -QVQDAQMLPQ--DLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYG 756
            Q+ D   L    +L  +EL    I               S +  L GL ++  L     
Sbjct: 122 NQITDIDPLKNLTNLNRLELSSNTI---------------SDISALSGLTSLQQLSFGNQ 166

Query: 757 MKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERC--SEILHIVGSVGRVHR 814
           +  L  L     LE L    N V ++        L+ L       S+I  +         
Sbjct: 167 VTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPL--------- 217

Query: 815 KVFPLLESLSLY--KLINLEAICH-SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNL 871
            +   L+ LSL   +L ++  +   + L +    +N +I  +     L  L    +  N 
Sbjct: 218 GILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANN-QISNLAPLSGLTKLTELKLGANQ 276

Query: 872 L 872
           +
Sbjct: 277 I 277

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 68.5 bits (168), Expect = 8e-12
 Identities = 35/141 (24%), Positives = 52/141 (36%), Gaps = 4/141 (2%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
                +++  P L  L L  N  S+         GT  L+ L LS      +S++   L 
Sbjct: 340 GSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE 399

Query: 591 NLQTLCLDWCQLEDVA---AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCS 646
            LQ L      L+ V    A   L+KL  L   Y++ K     I   L  L  L ++  S
Sbjct: 400 ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNS 459

Query: 647 SLVVIAPNVISKFSRLEELYM 667
                  NV +  + L  L +
Sbjct: 460 FKDNTLSNVFANTTNLTFLDL 480

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 65.1 bits (159), Expect = 8e-11
 Identities = 31/145 (21%), Positives = 56/145 (38%), Gaps = 7/145 (4%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLE-ISHLFFEGTEDLKVLSLSG--IHFSSLSSSLG 587
           ++ + E      L+ LL L    +  +      F G   L  L ++G     ++LS+   
Sbjct: 411 LKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFA 470

Query: 588 HLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSN 644
           +  NL  L L  CQLE +       L +L++L+  ++++  L      QL  L  LD S 
Sbjct: 471 NTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSF 530

Query: 645 CSSLVVIAPNVISKFSRLEELYMGD 669
              +      +      L    + +
Sbjct: 531 N-RIETSKGILQHFPKSLAFFNLTN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 63.5 bits (155), Expect = 3e-10
 Identities = 24/107 (22%), Positives = 37/107 (34%), Gaps = 5/107 (4%)

Query: 567 EDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSD 623
              K + LS      L S S  +   LQ L L  C++E +   A   L  L  L    + 
Sbjct: 32  SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP 91

Query: 624 IKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           I+         L  L+ L       L  +    I +   L++L +  
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH 137

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 59.7 bits (145), Expect = 4e-09
 Identities = 26/176 (14%), Positives = 57/176 (32%), Gaps = 13/176 (7%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG--IHFSSLSSSL 586
           IQ            L+ L+ +    +   +          LK L+++   IH   L +  
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVETKLA--SLESFPIGQLITLKKLNVAHNFIHSCKLPAYF 149

Query: 587 GHLINLQTLCLDWCQLEDV--AAIGQLKKL----EILSFRYSDIKQLPLEIGQLAQLQLL 640
            +L NL  + L +  ++ +    +  L++       L    + I  +  +  Q  +L  L
Sbjct: 150 SNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHEL 209

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYM-GDSFPQWDKVEGGSNASLAELKGLSKLT 695
            L    +   I    +   + L    +    F     +E    + +  L  ++   
Sbjct: 210 TLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDE 265

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 57.7 bits (140), Expect = 2e-08
 Identities = 24/147 (16%), Positives = 49/147 (33%), Gaps = 16/147 (10%)

Query: 531 IQELPERLE-CPQLKLLLLLANGDSYLEISHL----FFEGTEDLKVLSLSGIHFSSLS-S 584
              +        +L+ L        +  +  +     F   E L  L +S  +       
Sbjct: 388 AIIMSANFMGLEELQHLDF-----QHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDG 442

Query: 585 SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLL 640
               L +L TL +     +D            L  L      ++Q+   +   L +LQLL
Sbjct: 443 IFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLL 502

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYM 667
           ++S+  +L+ +  +  ++   L  L  
Sbjct: 503 NMSHN-NLLFLDSSHYNQLYSLSTLDC 528

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 53.9 bits (130), Expect = 3e-07
 Identities = 28/166 (16%), Positives = 52/166 (31%), Gaps = 23/166 (13%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWC 600
             + +        +      + F    ++  +SL+G+    L   +      Q+L +  C
Sbjct: 259 CDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYL-EDVPKHFKWQSLSIIRC 317

Query: 601 QLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVIS--K 658
           QL+    +  L  L+ L+   +    +  +   L  L  LDLS   +L        S   
Sbjct: 318 QLKQFPTLD-LPFLKSLTLTMNKGS-ISFKKVALPSLSYLDLSRN-ALSFSGCCSYSDLG 374

Query: 659 FSRLEELYMGD----SFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
            + L  L +                          GL +L  L+ Q
Sbjct: 375 TNSLRHLDLSFNGAIIMSAN-------------FMGLEELQHLDFQ 407

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

 Score = 66.9 bits (164), Expect = 2e-11
 Identities = 22/120 (18%), Positives = 53/120 (44%), Gaps = 5/120 (4%)

Query: 554 SYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQ 610
           S+L+++ +  +   ++ VL+L+      L +++      L +L + +  +  +      +
Sbjct: 12  SHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQK 71

Query: 611 LKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           L  L++L+ +++++ QL  +       L  L L +  S+  I  N   K   L  L +  
Sbjct: 72  LPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSH 130

>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 = 64.3 bits (157), Expect = 2e-10
 Identities = 30/147 (20%), Positives = 56/147 (38%), Gaps = 23/147 (15%)

Query: 540 CPQLKLLLLLANGDSYLEISHLF---FEGTEDLKVLSLSGIHFSSLSSS---LGHLINLQ 593
              +  + L     SY +   L    F     L+ L L  +   ++ SS      L NL 
Sbjct: 429 LENIFEIYL-----SYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLT 483

Query: 594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL---------PLEIGQLAQLQLLDL 642
            L L    + ++    +  L+KLEIL  +++++ +L            +  L+ L +L+L
Sbjct: 484 ILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNL 543

Query: 643 SNCSSLVVIAPNVISKFSRLEELYMGD 669
            +      I   V      L+ + +G 
Sbjct: 544 ESN-GFDEIPVEVFKDLFELKIIDLGL 569

>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 = 60.0 bits (146), Expect = 4e-09
 Identities = 30/141 (21%), Positives = 60/141 (42%), Gaps = 13/141 (9%)

Query: 539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LGHLINLQTLCL 597
             P L+ L+L       ++ S   F+   +L +L LS  + ++++   L  L  L+ L L
Sbjct: 452 LVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDL 511

Query: 598 DWCQLEDVAA----------IGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCS 646
               L  +            +  L  L IL+   +   ++P+E    L +L+++DL    
Sbjct: 512 QHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLN- 570

Query: 647 SLVVIAPNVISKFSRLEELYM 667
           +L  +  +V +    L+ L +
Sbjct: 571 NLNTLPASVFNNQVSLKSLNL 591

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

 Score = 57.3 bits (139), Expect = 3e-08
 Identities = 37/156 (23%), Positives = 55/156 (35%), Gaps = 17/156 (10%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFE-GTEDLKVLSLSGIHFSSLS-SSL 586
           I+E          +L  L L            L  E     ++ LSLS    S+ S ++ 
Sbjct: 183 IKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTF 242

Query: 587 GHL--INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLD 641
             L   NL  L L +  L  V   +   L +LE     Y++I+ L    +  L  ++ L+
Sbjct: 243 LGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLN 302

Query: 642 LSN--------CSSLVVIAPNVISKFSRLEELYMGD 669
           L           +SL  I          LE L M D
Sbjct: 303 LKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMED 338

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

 Score = 53.5 bits (129), Expect = 4e-07
 Identities = 29/170 (17%), Positives = 58/170 (34%), Gaps = 20/170 (11%)

Query: 540 CPQLKLLLLLAN----GDSYLEISHL---FFEGTEDLKVLSLSGIHFSSL-SSSLGHLIN 591
              ++ L L  +      S   +  +    F+  + L+ L++       + S+    LIN
Sbjct: 295 LFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN 354

Query: 592 LQTLCLDWCQLEDVAAIGQ------LKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSN 644
           L+ L L            +         L IL+   + I ++  +    L  L++LDL  
Sbjct: 355 LKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGL 414

Query: 645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKL 694
                 +          + E+Y+  +     K    +  S A +  L +L
Sbjct: 415 NEIGQELTGQEWRGLENIFEIYLSYN-----KYLQLTRNSFALVPSLQRL 459

>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 = 50.8 bits (122), Expect = 2e-06
 Identities = 33/190 (17%), Positives = 55/190 (28%), Gaps = 43/190 (22%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS---------------- 584
             L  L L  N               E+L+ L LS     +L S                
Sbjct: 121 KNLITLDLSHN--GLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLEL 178

Query: 585 -----------SLGHLINLQTLCLDWCQL-----EDVAAIGQLKKLEILSFRYSDIKQLP 628
                          +  L  L L+  QL     E +        +  LS   S +    
Sbjct: 179 SSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTS 238

Query: 629 LEIG---QLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASL 685
                  +   L +LDLS   +L V+  +  +   +LE  ++  +      ++   + SL
Sbjct: 239 NTTFLGLKWTNLTMLDLSYN-NLNVVGNDSFAWLPQLEYFFLEYN-----NIQHLFSHSL 292

Query: 686 AELKGLSKLT 695
             L  +  L 
Sbjct: 293 HGLFNVRYLN 302

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

 Score = 64.7 bits (158), Expect = 9e-11
 Identities = 75/484 (15%), Positives = 138/484 (28%), Gaps = 99/484 (20%)

Query: 557 EISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKK 613
            I H       +L+VL L     +++   +   L +L+ L L    L  +  +  G L  
Sbjct: 40  YIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSS 99

Query: 614 LEILSFRYSDIKQLPL--EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF 671
           L+ L+   +  + L +      L  LQ L + N  +   I     +  + L EL +    
Sbjct: 100 LKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKAL- 158

Query: 672 PQWDKVEGGSNASLAELK------------------GLSKLTTLEIQVQDAQMLP----- 708
                 +  S  S+ ++                    LS +  LE++  +          
Sbjct: 159 -SLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLP 217

Query: 709 --------QDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKML 760
                   + L F           E   + R   E S +       N           ++
Sbjct: 218 VDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVV 277

Query: 761 LKLT--EDIRLEELTGVQNVVHELDDG--EGFPRLKHLWVERCSEILHIVGSVGRVHRKV 816
            +L   E + +  L   Q  +            ++K + VE    +  +           
Sbjct: 278 SELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFLV-------PCSF 329

Query: 817 FPLLESLSLYKLINLE--AICHSQLREDQFFSNLKIIEV--------ESCDKLKHLFSFS 866
              L+SL   + ++L    +    L+          ++          S  K   +    
Sbjct: 330 SQHLKSL---EFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILL-- 384

Query: 867 IARNLLRLQKVKVASCNKLEMTVGPDREKPTT----SLGFNEIIADDDTAPKVGIPSSLV 922
               L  L  + + S N     +    + P      +L    I        K  IP +L 
Sbjct: 385 ---TLKNLTSLDI-SRNTFH-PMPDSCQWPEKMRFLNLSSTGI-----RVVKTCIPQTLE 434

Query: 923 NLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLIL--NYLSRLTSFCLENYTLEFPSLE 980
            L VS    ++                   L+ L +  N L  L    L      FP L 
Sbjct: 435 VLDVSNNN-LDSFSLF-----------LPRLQELYISRNKLKTLPDASL------FPVLL 476

Query: 981 RVSM 984
            + +
Sbjct: 477 VMKI 480

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

 Score = 61.3 bits (149), Expect = 1e-09
 Identities = 31/151 (20%), Positives = 56/151 (37%), Gaps = 11/151 (7%)

Query: 554 SYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDVA--AIGQ 610
                + +    T  +K L LS    + +    L    NLQ L L   ++  +   A   
Sbjct: 13  RSRSFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYS 72

Query: 611 LKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           L  LE L    + +  L     G L+ L+ L+L       +   ++    + L+ L +G+
Sbjct: 73  LGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGN 132

Query: 670 SFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
               + ++            GL+ L  LEI+
Sbjct: 133 -VETFSEIRRID------FAGLTSLNELEIK 156

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

 Score = 58.2 bits (141), Expect = 1e-08
 Identities = 22/149 (14%), Positives = 53/149 (35%), Gaps = 21/149 (14%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
            P L+ L+L  N    ++ +       ++L  L +S   F  +  S      ++ L L  
Sbjct: 360 WPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSS 419

Query: 600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQL-------------------AQLQLL 640
             +  V      + LE+L    +++    L + +L                     L ++
Sbjct: 420 TGIRVVKT-CIPQTLEVLDVSNNNLDSFSLFLPRLQELYISRNKLKTLPDASLFPVLLVM 478

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGD 669
            +S    L  +   +  + + L+++++  
Sbjct: 479 KISRN-QLKSVPDGIFDRLTSLQKIWLHT 506

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

 Score = 63.1 bits (154), Expect = 1e-10
 Identities = 21/115 (18%), Positives = 38/115 (33%), Gaps = 4/115 (3%)

Query: 557 EISHLFFEGTEDLKVLSLSG--IHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKL 614
            +  L       ++ L L    I   + +        L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 615 EILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           + L    + +  +  E    A +  + L N   LV+I    +     LE   +  
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLI-EKALRFSQNLEHFDLRG 246

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

 Score = 61.2 bits (149), Expect = 5e-10
 Identities = 24/178 (13%), Positives = 61/178 (34%), Gaps = 35/178 (19%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGIHFSSLS-SSL 586
           I E+ +     + K+  +     +   +        +   ++K L LSG   S +S + L
Sbjct: 2   IHEIKQNGN--RYKIEKV-----TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADL 54

Query: 587 GHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS 646
                L+ L L    L +   +  L  L  L    + +++L         ++ L  +N  
Sbjct: 55  APFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELL----VGPSIETLHAANN- 109

Query: 647 SLVVIAPNVISKFSRLEELYMGD----SFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
           ++  ++ +        + +Y+ +                     +    S++  L+++
Sbjct: 110 NISRVSCSR---GQGKKNIYLANNKITMLRD------------LDEGCRSRVQYLDLK 152

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

 Score = 46.9 bits (112), Expect = 2e-05
 Identities = 17/123 (13%), Positives = 39/123 (31%), Gaps = 19/123 (15%)

Query: 581 SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQL 637
           ++     +    +   +    L+    +       ++ L    + + Q+    +    +L
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 638 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
           +LL+LS+   L       +   S L  L +             +N  + EL     + TL
Sbjct: 61  ELLNLSSN-VLYETLD--LESLSTLRTLDL-------------NNNYVQELLVGPSIETL 104

Query: 698 EIQ 700
              
Sbjct: 105 HAA 107

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

 Score = 64.1 bits (156), Expect = 2e-10
 Identities = 46/351 (13%), Positives = 107/351 (30%), Gaps = 35/351 (9%)

Query: 557 EISHLFFEGTEDLKVLSLSG--IHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKL 614
            +  L       ++ L L    I   + +        L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 615 EILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG------ 668
           + L    + +  +  E    A +  + L N   LV+I    +     LE   +       
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLI-EKALRFSQNLEHFDLRGNGFHC 251

Query: 669 ----DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQML---------PQDLVFVE 715
               D F +  +V+  +  ++ +L G ++       +                  L+ ++
Sbjct: 252 GTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALK 311

Query: 716 LPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLEN------YGMKMLLKLT-EDIR 768
              + +  G+     R   E     +   ++ +               +  + L  +   
Sbjct: 312 RKEHALLSGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKA 371

Query: 769 LEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKL 828
           L+E        H   DG     +  + ++  +E    +  +  + ++   +       + 
Sbjct: 372 LDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVEQQSVQN 431

Query: 829 INLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKV 879
             +      Q +E Q       ++     KL      ++A     LQ++ V
Sbjct: 432 NAIRDWDMYQHKETQLAEENARLK-----KLNGEADLALASANATLQELVV 477

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

 Score = 59.1 bits (143), Expect = 5e-09
 Identities = 24/157 (15%), Positives = 53/157 (33%), Gaps = 29/157 (18%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGIHFSSLS-SSL 586
           I E+ +     + K+  +     +   +        +   ++K L LSG   S +S + L
Sbjct: 2   IHEIKQNG--NRYKIEKV-----TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADL 54

Query: 587 GHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP-----------------L 629
                L+ L L    L +   +  L  L  L    + +++L                  +
Sbjct: 55  APFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRV 114

Query: 630 EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELY 666
              +    + + L+N   + ++        SR++ L 
Sbjct: 115 SCSRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLD 150

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

 Score = 43.7 bits (103), Expect = 3e-04
 Identities = 17/123 (13%), Positives = 40/123 (32%), Gaps = 19/123 (15%)

Query: 581 SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQL 637
           ++     +    +   +    L+    +       ++ L    + + Q+   ++    +L
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 638 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
           +LL+LS+   L       +   S L  L +             +N  + EL     + TL
Sbjct: 61  ELLNLSSN-VLYETLD--LESLSTLRTLDL-------------NNNYVQELLVGPSIETL 104

Query: 698 EIQ 700
              
Sbjct: 105 HAA 107

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 62.0 bits (151), Expect = 2e-10
 Identities = 38/164 (23%), Positives = 67/164 (40%), Gaps = 25/164 (15%)

Query: 540 CPQLKLLLLLANGDSYLEISHLF-FEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD 598
            P +  L L  N     +++ +      ++L  L L       LSS L  L  L++L L+
Sbjct: 67  LPNVTKLFLNGN-----KLTDIKPLANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSLE 120

Query: 599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISK 658
              + D+  +  L +LE L    + I  +   + +L +L  L L +   +  I P  ++ 
Sbjct: 121 HNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDN-QISDIVP--LAG 176

Query: 659 FSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEIQ 700
            ++L+ LY+              N  + L  L GL  L  LE+ 
Sbjct: 177 LTKLQNLYLSK------------NHISDLRALAGLKNLDVLELF 208

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 52.0 bits (125), Expect = 5e-07
 Identities = 21/116 (18%), Positives = 36/116 (31%), Gaps = 17/116 (14%)

Query: 584 SSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLS 643
            S           L    + D     +L  ++ +    SDIK +   I  L  +  L L+
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 76

Query: 644 NCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI 699
               L  I P  ++    L  L++                 + +L  L  L  L+ 
Sbjct: 77  GN-KLTDIKP--LANLKNLGWLFL-------------DENKVKDLSSLKDLKKLKS 116

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 47.7 bits (114), Expect = 1e-05
 Identities = 31/136 (22%), Positives = 53/136 (38%), Gaps = 9/136 (6%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           I ++   +  PQL+ L L  N      I+ +        L  LSL     S +   L  L
Sbjct: 124 ISDINGLVHLPQLESLYLGNNK-----ITDITVLSRLTKLDTLSLEDNQISDIVP-LAGL 177

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
             LQ L L    + D+ A+  LK L++L     +    P+     + L + +    +   
Sbjct: 178 TKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKPINH--QSNLVVPNTVKNTDGS 235

Query: 650 VIAPNVISKFSRLEEL 665
           ++ P +IS     E+ 
Sbjct: 236 LVTPEIISDDGDYEKP 251

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 62.0 bits (151), Expect = 3e-10
 Identities = 32/134 (23%), Positives = 59/134 (44%), Gaps = 19/134 (14%)

Query: 569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP 628
           +  LS  G   +++   + +L NL  L L   Q+ D+A +  L K+  L    + +K + 
Sbjct: 43  ITTLSAFGTGVTTIEG-VQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS 101

Query: 629 LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNA--SLA 686
             I  L  ++ LDL++   +  + P  ++  S L+ LY+              N   +++
Sbjct: 102 -AIAGLQSIKTLDLTST-QITDVTP--LAGLSNLQVLYL------------DLNQITNIS 145

Query: 687 ELKGLSKLTTLEIQ 700
            L GL+ L  L I 
Sbjct: 146 PLAGLTNLQYLSIG 159

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 60.5 bits (147), Expect = 8e-10
 Identities = 29/139 (20%), Positives = 57/139 (41%), Gaps = 9/139 (6%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           ++ +        +K L L +   + +        G  +L+VL L     +++S  L  L 
Sbjct: 97  LKNVSAIAGLQSIKTLDLTSTQITDVT----PLAGLSNLQVLYLDLNQITNISP-LAGLT 151

Query: 591 NLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVV 650
           NLQ L +   Q+ D+  +  L KL  L    + I  +   +  L  L  + L N   +  
Sbjct: 152 NLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNN-QISD 209

Query: 651 IAPNVISKFSRLEELYMGD 669
           ++P  ++  S L  + + +
Sbjct: 210 VSP--LANTSNLFIVTLTN 226

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 51.2 bits (123), Expect = 9e-07
 Identities = 28/128 (21%), Positives = 44/128 (34%), Gaps = 9/128 (7%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           I  +        L+ L +        ++S L        L  L       S +S  L  L
Sbjct: 141 ITNISPLAGLTNLQYLSIGNA-----QVSDLTPLANLSKLTTLKADDNKISDISP-LASL 194

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
            NL  + L   Q+ DV+ +     L I++     I   P+       L + ++    S  
Sbjct: 195 PNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVFYNNN--LVVPNVVKGPSGA 252

Query: 650 VIAPNVIS 657
            IAP  IS
Sbjct: 253 PIAPATIS 260

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

 Score = 62.8 bits (153), Expect = 3e-10
 Identities = 42/184 (22%), Positives = 64/184 (34%), Gaps = 21/184 (11%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDW 599
              +LL L  N      I    F+    L++L LS  H  ++   +   L NL TL L  
Sbjct: 64  TNTRLLNLHENQIQ--IIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD 121

Query: 600 CQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVI 656
            +L  +   A   L KL+ L  R + I+ +P     ++  L+ LDL     L  I+    
Sbjct: 122 NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF 181

Query: 657 SKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEIQVQDAQMLPQDLVFV 714
              S L  L +                   +  L  L KL  L++       +     F 
Sbjct: 182 EGLSNLRYLNLAM------------CNLREIPNLTPLIKLDELDLSGNHLSAIRPG-SFQ 228

Query: 715 ELPR 718
            L  
Sbjct: 229 GLMH 232

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

 Score = 62.5 bits (152), Expect = 4e-10
 Identities = 36/151 (23%), Positives = 55/151 (36%), Gaps = 18/151 (11%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGI-HFS 580
           +IP G    L       +LK L L  N      I  +    F     L+ L L  +   S
Sbjct: 126 TIPNGAFVYLS------KLKELWLRNN-----PIESIPSYAFNRIPSLRRLDLGELKRLS 174

Query: 581 SLSS-SLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQ 638
            +S  +   L NL+ L L  C L ++  +  L KL+ L    + +  +       L  LQ
Sbjct: 175 YISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQ 234

Query: 639 LLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
            L +     + VI  N       L E+ +  
Sbjct: 235 KLWMIQSQ-IQVIERNAFDNLQSLVEINLAH 264

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

 Score = 63.0 bits (154), Expect = 5e-10
 Identities = 25/137 (18%), Positives = 51/137 (37%), Gaps = 13/137 (9%)

Query: 569 LKVLSLSGIHFS----SLSSSLGHLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRYSD 623
           +  + LS    +    ++SSSL  L  L++L L    +   V+       L  L    + 
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNS 111

Query: 624 IK-QLP--LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGG 680
           +   +     +G  + L+ L++S+ +       +   K + LE L +  +      + G 
Sbjct: 112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSAN-----SISGA 166

Query: 681 SNASLAELKGLSKLTTL 697
           +        G  +L  L
Sbjct: 167 NVVGWVLSDGCGELKHL 183

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

 Score = 58.8 bits (143), Expect = 1e-08
 Identities = 26/161 (16%), Positives = 48/161 (29%), Gaps = 41/161 (25%)

Query: 554 SYLEISHLFFEGT-------EDLKVLSLSGIHFS-SLSSSLGHLINLQTLCLDWCQLE-- 603
            +L++S   F            L+ L +SG   S   S ++     L+ L +   Q    
Sbjct: 203 EFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGP 262

Query: 604 ------------DVAA-----------IGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQL 639
                        +A             G    L  L    +     +P   G  + L+ 
Sbjct: 263 IPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLES 322

Query: 640 LDLSNCSSLV-VIAPNVISKFSRLEELYMGD-----SFPQW 674
           L LS+  +    +  + + K   L+ L +         P+ 
Sbjct: 323 LALSSN-NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPES 362

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

 Score = 56.8 bits (138), Expect = 4e-08
 Identities = 31/120 (25%), Positives = 46/120 (38%), Gaps = 13/120 (10%)

Query: 533 ELPERL-ECPQLKLLLLLAN---GDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLG 587
            +P  L    +L+ L L  N   G    EI          L+ L L     +  + S L 
Sbjct: 433 TIPSSLGSLSKLRDLKLWLNMLEG----EIPQELMYVKT-LETLILDFNDLTGEIPSGLS 487

Query: 588 HLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLSN 644
           +  NL  + L   +L       IG+L+ L IL    +     +P E+G    L  LDL+ 
Sbjct: 488 NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT 547

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

 Score = 56.5 bits (137), Expect = 5e-08
 Identities = 34/184 (18%), Positives = 60/184 (32%), Gaps = 33/184 (17%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANG-DSYLEISHLFFEGTEDLKVLSLSGIHFSSLS 583
           +              C +LK L +  N     +++S        +L+ L +S  +FS+  
Sbjct: 166 ANV----VGWVLSDGCGELKHLAISGNKISGDVDVSRC-----VNLEFLDVSSNNFSTGI 216

Query: 584 SSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLL 640
             LG    LQ L +   +L      AI    +L++L+   +     +P     L  LQ L
Sbjct: 217 PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYL 274

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGD-----SFPQWDKVEGGSNASLAELKGLSKLT 695
            L+       I   +      L  L +       + P +                 S L 
Sbjct: 275 SLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPF-------------FGSCSLLE 321

Query: 696 TLEI 699
           +L +
Sbjct: 322 SLAL 325

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

 Score = 47.2 bits (113), Expect = 3e-05
 Identities = 43/186 (23%), Positives = 67/186 (36%), Gaps = 40/186 (21%)

Query: 533 ELPERL-ECPQLKLLLLLAN---GDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLG 587
            +P     C  L+ L L +N   G    E+          LKVL LS   FS  L  SL 
Sbjct: 309 AVPPFFGSCSLLESLALSSNNFSG----ELPMDTLLKMRGLKVLDLSFNEFSGELPESLT 364

Query: 588 HL-INLQTLCLDWCQLEDV--AAIGQ--LKKLEILSFRYSDIK-QLPLEIGQLAQLQLLD 641
           +L  +L TL L            + Q     L+ L  + +    ++P  +   ++L  L 
Sbjct: 365 NLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLH 424

Query: 642 LSNCS---SLVVIAPNVISKFSRLEELYMGD-----SFPQWDKVEGGSNASLAELKGLSK 693
           LS      ++    P+ +   S+L +L +         PQ             EL  +  
Sbjct: 425 LSFNYLSGTI----PSSLGSLSKLRDLKLWLNMLEGEIPQ-------------ELMYVKT 467

Query: 694 LTTLEI 699
           L TL +
Sbjct: 468 LETLIL 473

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

 Score = 43.4 bits (103), Expect = 5e-04
 Identities = 16/103 (15%), Positives = 34/103 (33%), Gaps = 4/103 (3%)

Query: 546 LLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINLQTLCLDWCQL-- 602
             + AN  +     ++  +G +     + + + F    S  L  L       +       
Sbjct: 563 GKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGG 622

Query: 603 EDVAAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLSN 644
                      +  L   Y+ +   +P EIG +  L +L+L +
Sbjct: 623 HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGH 665

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 61.6 bits (150), Expect = 5e-10
 Identities = 27/172 (15%), Positives = 67/172 (38%), Gaps = 11/172 (6%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           I ++ + +     Q+ ++ L  N      I +  F+G + L  + ++  + +++   L  
Sbjct: 133 ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL-- 190

Query: 589 LINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNC 645
             +L  L LD  ++  V  A++  L  L  L   ++ I  +          L+ L L+N 
Sbjct: 191 PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN 250

Query: 646 SSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
             LV + P  ++    ++ +Y+ ++      +              +  + +
Sbjct: 251 -KLVKV-PGGLADHKYIQVVYLHNN--NISAIGSNDFCPPGYNTKKASYSGV 298

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 49.6 bits (119), Expect = 3e-06
 Identities = 38/184 (20%), Positives = 72/184 (39%), Gaps = 33/184 (17%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLF---FEGTEDLKVLSLSGIHFSS 581
            I  GD + L        L  L+L+ N     +IS +    F     L+ L LS      
Sbjct: 66  EIKDGDFKNLK------NLHTLILINN-----KISKISPGAFAPLVKLERLYLSKNQLKE 114

Query: 582 LSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLEIG---QLAQ 636
           L   +     LQ L +   ++  V  +    L ++ ++    + +K   +E G    + +
Sbjct: 115 LPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKK 172

Query: 637 LQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTT 696
           L  + +++  ++  I   +      L EL++  +  +  KV+  S      LKGL+ L  
Sbjct: 173 LSYIRIADT-NITTIPQGL---PPSLTELHLDGN--KITKVDAAS------LKGLNNLAK 220

Query: 697 LEIQ 700
           L + 
Sbjct: 221 LGLS 224

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

 Score = 62.8 bits (152), Expect = 5e-10
 Identities = 36/182 (19%), Positives = 65/182 (35%), Gaps = 28/182 (15%)

Query: 522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFS 580
           I +S P   I          +     L         ++          +  +  +     
Sbjct: 5   ITVSTPIKQIFPDDA---FAETIKDNL-----KKKSVTDAVTQNELNSIDQIIANNSDIK 56

Query: 581 SLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLL 640
           S+   + +L N+  L L+  +L D+  +  LK L  L    + IK L   +  L +L+ L
Sbjct: 57  SVQG-IQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSL 114

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLE 698
            L +   +  I    +    +LE LY+G+            N    +  L  L+KL TL 
Sbjct: 115 SLEHN-GISDING--LVHLPQLESLYLGN------------NKITDITVLSRLTKLDTLS 159

Query: 699 IQ 700
           ++
Sbjct: 160 LE 161

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

 Score = 60.5 bits (146), Expect = 3e-09
 Identities = 40/191 (20%), Positives = 71/191 (37%), Gaps = 12/191 (6%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           + ++        L  L L  N     +I  L   +  + LK LSL     S ++  L HL
Sbjct: 77  LTDIKPLTNLKNLGWLFLDEN-----KIKDLSSLKDLKKLKSLSLEHNGISDING-LVHL 130

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
             L++L L   ++ D+  + +L KL+ LS   + I  +   +  L +LQ L LS    + 
Sbjct: 131 PQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIV-PLAGLTKLQNLYLSKN-HIS 188

Query: 650 VIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN-ASLAELKGLSKLTTLEIQVQDAQMLP 708
            +    ++    L+ L +         +   SN      +K           + D     
Sbjct: 189 DLRA--LAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYE 246

Query: 709 QDLVFVELPRY 719
           +  V   LP +
Sbjct: 247 KPNVKWHLPEF 257

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

 Score = 62.5 bits (151), Expect = 6e-10
 Identities = 29/169 (17%), Positives = 55/169 (32%), Gaps = 12/169 (7%)

Query: 502 SIPNVTNLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLE-ISH 560
           ++   + LK              S    +   L    E   +++L L     + L  +  
Sbjct: 404 TLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKM--EYADVRVLHLAHKDLTVLCHLEQ 461

Query: 561 LFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFR 620
           L       +  L LS     +L  +L  L  L+ L      LE+V  +  L +L+ L   
Sbjct: 462 LLL-----VTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLC 516

Query: 621 YSDIKQLP--LEIGQLAQLQLLDLSN--CSSLVVIAPNVISKFSRLEEL 665
            + ++Q      +    +L LL+L          I   +      +  +
Sbjct: 517 NNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

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

 Score = 61.6 bits (150), Expect = 6e-10
 Identities = 21/142 (14%), Positives = 50/142 (35%), Gaps = 13/142 (9%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLS-SSLGH 588
           I  +   +   +L +L L  N      ++   +      L  + LS      +       
Sbjct: 217 INVVRGPV-NVELTILKLQHN-----NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVK 270

Query: 589 LINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSS 647
           +  L+ L +   +L  +      +  L++L   ++ +  +     Q  +L+ L L +  S
Sbjct: 271 MQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-S 329

Query: 648 LVVIAPNVISKFSRLEELYMGD 669
           +V +  +       L+ L +  
Sbjct: 330 IVTLKLST---HHTLKNLTLSH 348

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

 Score = 60.1 bits (146), Expect = 2e-09
 Identities = 27/184 (14%), Positives = 63/184 (34%), Gaps = 17/184 (9%)

Query: 530 DIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGH 588
           D+    E +     K++    +    L  +    +    +++L+L+ +    + + +  +
Sbjct: 34  DVYFGFEDITLNNQKIVTFKNSTMRKLPAA--LLDSFRQVELLNLNDLQIEEIDTYAFAY 91

Query: 589 LINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNC 645
              +Q L + +  +  +       +  L +L    +D+  LP  I     +L  L +SN 
Sbjct: 92  AHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN 151

Query: 646 SSLVVIAPNVISKFSRLEELYMGD---------SFPQWDKVEGGSNASLAELKGLSKLTT 696
            +L  I  +     + L+ L +             P         N  L+ L     +  
Sbjct: 152 -NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYN-LLSTLAIPIAVEE 209

Query: 697 LEIQ 700
           L+  
Sbjct: 210 LDAS 213

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

 Score = 55.4 bits (134), Expect = 5e-08
 Identities = 27/141 (19%), Positives = 54/141 (38%), Gaps = 14/141 (9%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           ++ + +        L+ L L +N      ++H+       L   ++S    S+L+     
Sbjct: 153 LERIEDDTFQATTSLQNLQLSSN-----RLTHVDLSLIPSLFHANVSYNLLSTLAI---- 203

Query: 589 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSL 648
            I ++ L      +  V       +L IL  +++++      +     L  +DLS    L
Sbjct: 204 PIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTA-WLLNYPGLVEVDLSYN-EL 260

Query: 649 VVIAPNVISKFSRLEELYMGD 669
             I  +   K  RLE LY+ +
Sbjct: 261 EKIMYHPFVKMQRLERLYISN 281

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 60.1 bits (146), Expect = 1e-09
 Identities = 37/156 (23%), Positives = 56/156 (35%), Gaps = 19/156 (12%)

Query: 568 DLKVLSLSGIHFSSLSSS-LGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQ 626
           D  +L LS     + S + L     L  L LD  +L  +   G L  L  L   ++ ++ 
Sbjct: 32  DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQS 91

Query: 627 LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNA--S 684
           LPL    L  L +LD+S    L  +    +     L+ELY+              N   +
Sbjct: 92  LPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYL------------KGNELKT 138

Query: 685 LAE--LKGLSKLTTLEIQVQDAQMLPQDLVFVELPR 718
           L    L    KL  L +   +   LP   +   L  
Sbjct: 139 LPPGLLTPTPKLEKLSLANNNLTELPAG-LLNGLEN 173

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 58.6 bits (142), Expect = 4e-09
 Identities = 28/142 (19%), Positives = 56/142 (39%), Gaps = 10/142 (7%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           +            +L  L L     + L++          L  L LS     SL      
Sbjct: 43  LYTFSLATLMPYTRLTQLNLDRAELTKLQV----DGTLPVLGTLDLSHNQLQSLPLLGQT 98

Query: 589 LINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNC 645
           L  L  L + + +L  +   A+  L +L+ L  + +++K LP  +     +L+ L L+N 
Sbjct: 99  LPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN- 157

Query: 646 SSLVVIAPNVISKFSRLEELYM 667
           ++L  +   +++    L+ L +
Sbjct: 158 NNLTELPAGLLNGLENLDTLLL 179

>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 = 60.9 bits (148), Expect = 1e-09
 Identities = 37/166 (22%), Positives = 54/166 (32%), Gaps = 20/166 (12%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDW 599
              + L L+ N      I    F     L+VL L       +   +   L +L TL L  
Sbjct: 75  SNTRYLNLMENNIQ--MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD 132

Query: 600 CQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVI 656
             L  +   A   L KL  L  R + I+ +P     ++  L  LDL     L  I+    
Sbjct: 133 NWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAF 192

Query: 657 SKFSRLEELYMGDSFPQWDKVEGGSN--ASLAELKGLSKLTTLEIQ 700
                L+ L +G                  +  L  L  L  LE+ 
Sbjct: 193 EGLFNLKYLNLGM------------CNIKDMPNLTPLVGLEELEMS 226

>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 = 60.1 bits (146), Expect = 2e-09
 Identities = 34/151 (22%), Positives = 56/151 (37%), Gaps = 18/151 (11%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGI-HFS 580
            IP G  + L       +L+ L L  N      I  +    F     L  L L  +    
Sbjct: 137 VIPSGAFEYLS------KLRELWLRNN-----PIESIPSYAFNRVPSLMRLDLGELKKLE 185

Query: 581 SLSS-SLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQ 638
            +S  +   L NL+ L L  C ++D+  +  L  LE L    +   ++       L+ L+
Sbjct: 186 YISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLK 245

Query: 639 LLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
            L + N   + +I  N     + L EL +  
Sbjct: 246 KLWVMNS-QVSLIERNAFDGLASLVELNLAH 275

>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 = 61.6 bits (150), Expect = 1e-09
 Identities = 26/148 (17%), Positives = 49/148 (33%), Gaps = 13/148 (8%)

Query: 554 SYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQ 610
             L ++ +        + L  S     ++ +++   LINL  L L  CQ+  +       
Sbjct: 20  ENLGLNEIPGTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQS 79

Query: 611 LKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
             +L+ L    + +  +          L+ L       +  I    +     LE LY+G 
Sbjct: 80  QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGS 138

Query: 670 SFPQWDKVEGGSNASLAELKGLSKLTTL 697
           +          S+  L +     KL  L
Sbjct: 139 NHI--------SSIKLPKGFPTEKLKVL 158

>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 = 60.4 bits (147), Expect = 2e-09
 Identities = 32/159 (20%), Positives = 65/159 (40%), Gaps = 25/159 (15%)

Query: 558 ISHLFFEGTEDLKVLSLSGIHFSSL----SSSLGHLINLQTLCLDWCQLEDVA--AIGQL 611
            S   F+G   L+ L+L G HF       ++SL  L  L+ L L +C L  +   A   L
Sbjct: 440 SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSL 499

Query: 612 KKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD-- 669
           K +  +   ++ +    +E     +   L+L++ + + +I P+++   S+   + +    
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLAS-NHISIILPSLLPILSQQRTINLRQNP 558

Query: 670 --------SFPQW-----DKVEGGSN---ASLAELKGLS 692
                    F +W      K+E   +    +   L+G+ 
Sbjct: 559 LDCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLLRGVR 597

>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 = 60.0 bits (146), Expect = 3e-09
 Identities = 42/184 (22%), Positives = 63/184 (34%), Gaps = 30/184 (16%)

Query: 531 IQELPERLE-CPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSG--IHFSSLSS 584
           + ELP  L     LK L+L     S  +  +L          L  LS+ G        + 
Sbjct: 290 LSELPSGLVGLSTLKKLVL-----SANKFENLCQISASNFPSLTHLSIKGNTKRLELGTG 344

Query: 585 SLGHLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQL 639
            L +L NL+ L L    +E        +  L  L+ L+  Y++   L  E   +  QL+L
Sbjct: 345 CLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLEL 404

Query: 640 LDLSNCSSLVVIAPNVISKFSRLEELYMGD---SFPQWDKVEGGSNASLAELKGLSKLTT 696
           LDL+     V  A +       L+ L +                         GL  L  
Sbjct: 405 LDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQ-----------LFDGLPALQH 453

Query: 697 LEIQ 700
           L +Q
Sbjct: 454 LNLQ 457

>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 = 58.9 bits (143), Expect = 7e-09
 Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 5/135 (3%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
             ++ +  +      +  IS   F     L+ L L+  H S L S L  L  L+ L L  
Sbjct: 251 LCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSA 310

Query: 600 CQLEDV--AAIGQLKKLEILSFRYSDIKQL--PLEIGQLAQLQLLDLSNCS-SLVVIAPN 654
            + E++   +      L  LS + +  +       +  L  L+ LDLS+           
Sbjct: 311 NKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNL 370

Query: 655 VISKFSRLEELYMGD 669
            +   S L+ L +  
Sbjct: 371 QLRNLSHLQSLNLSY 385

>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 = 50.8 bits (122), Expect = 2e-06
 Identities = 37/183 (20%), Positives = 63/183 (34%), Gaps = 35/183 (19%)

Query: 533 ELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLK-----VLSLSGIHFSSLSSSLG 587
           +LP+     +LK+L    N      I +L  E    L+      L+L+G   + +     
Sbjct: 145 KLPKGFPTEKLKVLDFQNN-----AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAF 199

Query: 588 HLINLQTLCLDWCQLEDVAAIG----QLKKLEILSFRYSDIKQLP---LEIGQLAQLQLL 640
                Q+L     Q   V   G     ++ L + +F   D + +     E      ++ +
Sbjct: 200 DSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESI 259

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGD----SFPQWDKVEGGSNASLAELKGLSKLTT 696
           +L        I+ N    FS L+EL +        P             + L GLS L  
Sbjct: 260 NLQKH-YFFNISSNTFHCFSGLQELDLTATHLSELP-------------SGLVGLSTLKK 305

Query: 697 LEI 699
           L +
Sbjct: 306 LVL 308

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

 Score = 61.1 bits (148), Expect = 2e-09
 Identities = 21/142 (14%), Positives = 50/142 (35%), Gaps = 13/142 (9%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLS-SSLGH 588
           I  +   +   +L +L L  N      ++   +      L  + LS      +       
Sbjct: 223 INVVRGPV-NVELTILKLQHN-----NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVK 276

Query: 589 LINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSS 647
           +  L+ L +   +L  +      +  L++L   ++ +  +     Q  +L+ L L +  S
Sbjct: 277 MQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-S 335

Query: 648 LVVIAPNVISKFSRLEELYMGD 669
           +V +  +       L+ L +  
Sbjct: 336 IVTLKLST---HHTLKNLTLSH 354

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

 Score = 55.7 bits (134), Expect = 7e-08
 Identities = 26/151 (17%), Positives = 52/151 (34%), Gaps = 10/151 (6%)

Query: 528 YGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTED-----LKVLSLSGIHFSSL 582
           Y      PE            +         +   + G ED      K+++        L
Sbjct: 7   YNVKPRQPEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKL 66

Query: 583 -SSSLGHLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEIGQ-LAQLQ 638
            ++ L     ++ L L+  Q+E++   A      ++ L   ++ I+ LP  + Q +  L 
Sbjct: 67  PAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLT 126

Query: 639 LLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           +L L     L  +   +     +L  L M +
Sbjct: 127 VLVLERN-DLSSLPRGIFHNTPKLTTLSMSN 156

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

 Score = 54.5 bits (131), Expect = 2e-07
 Identities = 27/141 (19%), Positives = 54/141 (38%), Gaps = 14/141 (9%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           ++ + +        L+ L L +N      ++H+       L   ++S    S+L+     
Sbjct: 159 LERIEDDTFQATTSLQNLQLSSN-----RLTHVDLSLIPSLFHANVSYNLLSTLAI---- 209

Query: 589 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSL 648
            I ++ L      +  V       +L IL  +++++      +     L  +DLS    L
Sbjct: 210 PIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTA-WLLNYPGLVEVDLSYN-EL 266

Query: 649 VVIAPNVISKFSRLEELYMGD 669
             I  +   K  RLE LY+ +
Sbjct: 267 EKIMYHPFVKMQRLERLYISN 287

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 60.5 bits (147), Expect = 2e-09
 Identities = 25/183 (13%), Positives = 54/183 (29%), Gaps = 21/183 (11%)

Query: 529 GDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           G  Q   +          +  A      +   +  E    L  L       + + + +  
Sbjct: 6   GQTQSFNDWFPDDNFASEVAAAFEMQATDT--ISEEQLATLTSLDCHNSSITDM-TGIEK 62

Query: 589 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSL 648
           L  L  L      +  +  + Q   L  L+   + +  L   +  L +L  L+       
Sbjct: 63  LTGLTKLICTSNNITTL-DLSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCDTNK-- 117

Query: 649 VVIAPNVISKFSRLEELYMGD---------SFPQWDKVEGGSNA--SLAELKGLSKLTTL 697
             +    +S+   L  L                Q  +++   N   +  ++   ++LTTL
Sbjct: 118 --LTKLDVSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTL 175

Query: 698 EIQ 700
           +  
Sbjct: 176 DCS 178

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 55.5 bits (134), Expect = 6e-08
 Identities = 26/170 (15%), Positives = 55/170 (32%), Gaps = 24/170 (14%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
                +     QL  L    N  + L++S       + L  L+    + + L   L   I
Sbjct: 160 KITKLDVTPQTQLTTLDCSFNKITELDVSQN-----KLLNRLNCDTNNITKL--DLNQNI 212

Query: 591 NLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVV 650
            L  L     +L ++  +  L +L       + + +L   +  L++L  L          
Sbjct: 213 QLTFLDCSSNKLTEI-DVTPLTQLTYFDCSVNPLTELD--VSTLSKLTTLHCIQTD---- 265

Query: 651 IAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
           +    ++  ++L               EG       ++   ++L  L+ Q
Sbjct: 266 LLEIDLTHNTQLIYFQA----------EGCRKIKELDVTHNTQLYLLDCQ 305

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 53.9 bits (130), Expect = 2e-07
 Identities = 27/174 (15%), Positives = 54/174 (31%), Gaps = 31/174 (17%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
             +L  L    N     +++ L       L  L+ +    + +   + H   L  L    
Sbjct: 105 LTKLTYLNCDTN-----KLTKLDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHL 157

Query: 600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNC--SSLVVIAPNVIS 657
            +      +    +L  L   ++ I +L   + Q   L  L+      + L       ++
Sbjct: 158 NKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNNITKL------DLN 209

Query: 658 KFSRLEELYMGDSFPQWDKVEGGSNASLAEL------------KGLSKLTTLEI 699
           +  +L  L    +  +  +++      L                 LSKLTTL  
Sbjct: 210 QNIQLTFLDCSSN--KLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHC 261

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 49.7 bits (119), Expect = 4e-06
 Identities = 21/105 (20%), Positives = 39/105 (37%), Gaps = 7/105 (6%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
             QL LL   A G + L++S         L  L L+    + L   + H   L++L    
Sbjct: 296 NTQLYLLDCQAAGITELDLSQN-----PKLVYLYLNNTELTELD--VSHNTKLKSLSCVN 348

Query: 600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
             ++D +++G++  L            +P E      L +    +
Sbjct: 349 AHIQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTIAVSPD 393

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 48.9 bits (117), Expect = 7e-06
 Identities = 29/161 (18%), Positives = 53/161 (32%), Gaps = 30/161 (18%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDW 599
             QL       N  + L++S L       L  L         +   L H   L     + 
Sbjct: 232 LTQLTYFDCSVNPLTELDVSTL-----SKLTTLHCIQTDLLEID--LTHNTQLIYFQAEG 284

Query: 600 CQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNC--SSLVVIAPNVIS 657
           C+      +    +L +L  + + I +L   + Q  +L  L L+N   + L       +S
Sbjct: 285 CRKIKELDVTHNTQLYLLDCQAAGITELD--LSQNPKLVYLYLNNTELTEL------DVS 336

Query: 658 KFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE 698
             ++L+ L                NA + +   + K+  L 
Sbjct: 337 HNTKLKSLSC-------------VNAHIQDFSSVGKIPALN 364

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 58.9 bits (143), Expect = 2e-09
 Identities = 30/136 (22%), Positives = 41/136 (30%), Gaps = 12/136 (8%)

Query: 541 PQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLC 596
             L+ L L  N      +  +    F G   L  L L       L       L  LQ L 
Sbjct: 80  ALLEQLDLSDNAQ----LRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLY 135

Query: 597 LDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAP 653
           L    L+ +       L  L  L    + I  +P      L  L  L L     +  + P
Sbjct: 136 LQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHP 194

Query: 654 NVISKFSRLEELYMGD 669
           +      RL  LY+  
Sbjct: 195 HAFRDLGRLMTLYLFA 210

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 51.9 bits (125), Expect = 4e-07
 Identities = 36/183 (19%), Positives = 65/183 (35%), Gaps = 17/183 (9%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCL-D 598
              + + L  N  S++  +   F    +L +L L     + + + +   L  L+ L L D
Sbjct: 32  AASQRIFLHGNRISHVPAAS--FRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSD 89

Query: 599 WCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNV 655
             QL  V       L +L  L      +++L   +   LA LQ L L +  +L  +  + 
Sbjct: 90  NAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDT 148

Query: 656 ISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVE 715
                 L  L++     +   V   +       +GL  L  L +       +     F +
Sbjct: 149 FRDLGNLTHLFL--HGNRISSVPERA------FRGLHSLDRLLLHQNRVAHVHPH-AFRD 199

Query: 716 LPR 718
           L R
Sbjct: 200 LGR 202

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

 Score = 59.7 bits (145), Expect = 3e-09
 Identities = 35/176 (19%), Positives = 69/176 (39%), Gaps = 17/176 (9%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLG 587
           I  L + +  +   LK L +  N      ISH  F G   L+ L+L   + +S+ + +L 
Sbjct: 116 IVILLDYMFQDLYNLKSLEVGDNDLV--YISHRAFSGLNSLEQLTLEKCNLTSIPTEALS 173

Query: 588 HLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSD-IKQLPLEIGQLAQLQLLDLSN 644
           HL  L  L L    +  +   +  +L +L++L   +   +  +         L  L +++
Sbjct: 174 HLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITH 233

Query: 645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
           C +L  +    +     L  L +  +      +EG        L  L +L  +++ 
Sbjct: 234 C-NLTAVPYLAVRHLVYLRFLNLSYN--PISTIEGSM------LHELLRLQEIQLV 280

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

 Score = 58.2 bits (141), Expect = 1e-08
 Identities = 38/176 (21%), Positives = 60/176 (34%), Gaps = 17/176 (9%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLG 587
           I+ L +      P L+ L L  N  S +E     F    +L+ L L       +      
Sbjct: 44  IKTLNQDEFASFPHLEELELNENIVSAVEPG--AFNNLFNLRTLGLRSNRLKLIPLGVFT 101

Query: 588 HLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLDLSN 644
            L NL  L +   ++  +       L  L+ L    +D+  +       L  L+ L L  
Sbjct: 102 GLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK 161

Query: 645 CSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ 700
           C +L  I    +S    L  L +       + +   S       K L +L  LEI 
Sbjct: 162 C-NLTSIPTEALSHLHGLIVLRLRHL--NINAIRDYS------FKRLYRLKVLEIS 208

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

 Score = 59.6 bits (145), Expect = 4e-09
 Identities = 24/137 (17%), Positives = 48/137 (35%), Gaps = 16/137 (11%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHL 589
           +++LP+    P L+ +    N    L E+ +L       L  +         L       
Sbjct: 165 LKKLPDLP--PSLEFIAAGNNQLEELPELQNL-----PFLTAIYADNNSLKKLPDLPL-- 215

Query: 590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLV 649
            +L+++      LE++  +  L  L  +    + +K LP     L  L + D    + L 
Sbjct: 216 -SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYL-TDL- 272

Query: 650 VIAPNVISKFSRLEELY 666
              P +    + L+   
Sbjct: 273 ---PELPQSLTFLDVSE 286

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

 Score = 59.2 bits (144), Expect = 4e-09
 Identities = 40/188 (21%), Positives = 63/188 (33%), Gaps = 43/188 (22%)

Query: 530 DIQELPERLECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSGIHFSSLSSSLG 587
            +  LPE    P L+ L+   N  + L      L     + L V + +    S L     
Sbjct: 82  GLSSLPE--LPPHLESLVASCNSLTELPELPQSL-----KSLLVDNNNLKALSDLPP--- 131

Query: 588 HLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLD------ 641
               L+ L +   QLE +  +     L+I+    + +K+LP     L  +   +      
Sbjct: 132 ---LLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEEL 188

Query: 642 --LSNCSSLVV--IAPNVISKF----SRLEELYMGDSFPQWDKVEGGSN--ASLAELKGL 691
             L N   L       N + K       LE +  G+            N    L EL+ L
Sbjct: 189 PELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGN------------NILEELPELQNL 236

Query: 692 SKLTTLEI 699
             LTT+  
Sbjct: 237 PFLTTIYA 244

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

 Score = 55.0 bits (133), Expect = 1e-07
 Identities = 34/202 (16%), Positives = 63/202 (31%), Gaps = 51/202 (25%)

Query: 530 DIQELPERL-ECPQLKLLLLLANG-----------DSYLEISHLFFEGTEDLKVLSLSGI 577
           ++ E+P                +               + +S L          L L+ +
Sbjct: 22  NLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL 81

Query: 578 HFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPL------- 629
             SSL        +L++L      L ++      LK L + +     +  LP        
Sbjct: 82  GLSSLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGV 138

Query: 630 ---------EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGG 680
                    E+   + L+++D+ N  SL  + P++      LE +  G+           
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNN-SLKKL-PDLPPS---LEFIAAGN----------- 182

Query: 681 SN--ASLAELKGLSKLTTLEIQ 700
            N    L EL+ L  LT +   
Sbjct: 183 -NQLEELPELQNLPFLTAIYAD 203

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

 Score = 43.4 bits (103), Expect = 4e-04
 Identities = 21/153 (13%), Positives = 47/153 (30%), Gaps = 32/153 (20%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           I+ L +    P L+ L +  N     ++  L       L+ L  S  H + +        
Sbjct: 309 IRSLCDLP--PSLEELNVSNN-----KLIELP-ALPPRLERLIASFNHLAEVPELPQ--- 357

Query: 591 NLQTLCLDWCQLEDV-AAIGQLK----------------KLEILSFRYSDIKQLPLEIGQ 633
           NL+ L +++  L +       ++                 L+ L    + +++ P     
Sbjct: 358 NLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIPES 417

Query: 634 LAQLQLLDLSNCSSLVVIAPNVISKFSRLEELY 666
           +  L++                     +LE+  
Sbjct: 418 VEDLRMNSERVVD----PYEFAHETTDKLEDDV 446

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 58.2 bits (141), Expect = 6e-09
 Identities = 50/253 (19%), Positives = 99/253 (39%), Gaps = 25/253 (9%)

Query: 557 EISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKK 613
            IS+   +   +L+ L L+    +++   S   L +L+ L L +  L ++  +    L  
Sbjct: 66  YISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSS 125

Query: 614 LEILSFRYSDIKQLPLEI--GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF 671
           L  L+   +  K L        L +LQ+L + N  +   I     +  + LEEL +  S 
Sbjct: 126 LTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS- 184

Query: 672 PQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPR-YRICIGEAWGIW 730
                 E  S      LK +  ++ L + ++   +L  ++          + + +     
Sbjct: 185 -DLQSYEPKS------LKSIQNVSHLILHMKQHILLL-EIFVDVTSSVECLELRDTDLDT 236

Query: 731 RANSE-----TSRLVQLHGLENVSTLLENYGMKMLLKLTEDI-RLEELTGVQNVVHELDD 784
              SE     T+ L++     NV   + +  +  ++KL   I  L EL   +N +  + D
Sbjct: 237 FHFSELSTGETNSLIKKFTFRNVK--ITDESLFQVMKLLNQISGLLELEFSRNQLKSVPD 294

Query: 785 G--EGFPRLKHLW 795
           G  +    L+ +W
Sbjct: 295 GIFDRLTSLQKIW 307

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 58.0 bits (140), Expect = 1e-08
 Identities = 50/364 (13%), Positives = 100/364 (27%), Gaps = 75/364 (20%)

Query: 540 CPQLKLLLLLANGDSYLEISHL--FFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL 597
              L++L       + +    L         L  + +       L        NL+  C 
Sbjct: 191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCG 250

Query: 598 DWCQLED-----VAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIA 652
                +         +   +KL  L   Y    ++P+     AQ++ LDL          
Sbjct: 251 GSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDH 310

Query: 653 PNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAEL-KGLSKLTTLEIQVQDAQMLPQDL 711
             +I K   LE L   +            +  L  L +   +L  L I            
Sbjct: 311 CTLIQKCPNLEVLETRNVI---------GDRGLEVLAQYCKQLKRLRI------------ 349

Query: 712 VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEE 771
                        E     +   +   LV   GL  ++      G + L  +   + + +
Sbjct: 350 -------------ERGADEQGMEDEEGLVSQRGLIALAQ-----GCQELEYM--AVYVSD 389

Query: 772 LT--GVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLI 829
           +T   ++++   L   +     + + ++R   I  +    G     V  LL      +  
Sbjct: 390 ITNESLESIGTYL---KNLCDFRLVLLDREERITDLPLDNG-----VRSLLIGCKKLRRF 441

Query: 830 NLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFS----------FSIARNLLRLQKVKV 879
                       D   S +     +    ++ +               +R    LQK+++
Sbjct: 442 AFYLRQ--GGLTDLGLSYI----GQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEM 495

Query: 880 ASCN 883
             C 
Sbjct: 496 RGCC 499

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 53.8 bits (129), Expect = 3e-07
 Identities = 58/378 (15%), Positives = 124/378 (32%), Gaps = 77/378 (20%)

Query: 540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHF---SSLSSSLGHLINLQTLC 596
             QLK +       S L++  L     +DL+ L L          L S + H   ++TL 
Sbjct: 111 LRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLL 170

Query: 597 LDWCQLED-----VAAIGQ-LKKLEILSFRYSDIKQLPLE-IGQLAQ----LQLLDLSNC 645
           ++     +     +  + Q    LE+L+F  ++  ++  + +  +A+    L  + + + 
Sbjct: 171 MEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF 230

Query: 646 SSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ 705
             L ++        + LEE   G         + G       L    KL  L +      
Sbjct: 231 EILELVG--FFKAAANLEEFCGGSLN-----EDIGMPEKYMNLVFPRKLCRLGLSYMGPN 283

Query: 706 MLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTE 765
            +P                            +++ +L  L   + L       ++ K   
Sbjct: 284 EMPILF----------------------PFAAQIRKLD-LLY-ALLETEDHCTLIQKCP- 318

Query: 766 DIRLEELTGVQNVVHELDD------GEGFPRLKHLWVERCSEILHIVGSVGRVHRKVF-- 817
              LE L       + + D       +   +LK L +ER ++   +    G V ++    
Sbjct: 319 --NLEVL----ETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIA 372

Query: 818 -----PLLESLSLY-KLIN---LEAICHSQLREDQFFSNLKIIEVESCDKLKHLFS---- 864
                  LE +++Y   I    LE+I            + +++ ++  +++  L      
Sbjct: 373 LAQGCQELEYMAVYVSDITNESLESIGTYLKN----LCDFRLVLLDREERITDLPLDNGV 428

Query: 865 FSIARNLLRLQKVKVASC 882
            S+     +L++      
Sbjct: 429 RSLLIGCKKLRRFAFYLR 446

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 42.6 bits (100), Expect = 7e-04
 Identities = 54/465 (11%), Positives = 131/465 (28%), Gaps = 93/465 (20%)

Query: 568  DLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRY-- 621
            +L   +  G     ++    +L  L+++      + D+     A  +   LE L      
Sbjct: 90   NLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCS 149

Query: 622  --SDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSR----LEELYMGDSFPQWD 675
              +    L +      +++ L +    S        + + ++    LE L          
Sbjct: 150  GFTTDGLLSIVTH-CRKIKTLLMEES-SFSEKDGKWLHELAQHNTSLEVLNF-----YMT 202

Query: 676  KVEGGSNASLAEL-KGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANS 734
            +    S   L  + +    L ++++          D   +EL           G ++A +
Sbjct: 203  EFAKISPKDLETIARNCRSLVSVKV---------GDFEILEL----------VGFFKAAA 243

Query: 735  ETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDD--GEGFPRLK 792
                       E++    +   +    KL          G+  +             +++
Sbjct: 244  NLEEFCGGSLNEDIGMPEKYMNLVFPRKLC-------RLGLSYMGPNEMPILFPFAAQIR 296

Query: 793  HLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIE 852
             L +        +         +  P LE L    +I    +        Q+   LK + 
Sbjct: 297  KLDLLYAL----LETEDHCTLIQKCPNLEVLETRNVIGDRGLEVL----AQYCKQLKRLR 348

Query: 853  VESCDKLKHLFSF----------SIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGF 902
            +E     + +             ++A+    L+ + V   + +            T+   
Sbjct: 349  IERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDI------------TNESL 395

Query: 903  NEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEE-VKENRIAFSELKVLILNYL 961
              I              +L + ++    + E I     +  V+   I   +L+       
Sbjct: 396  ESIGTY---------LKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLR 446

Query: 962  SR-LTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCK 1005
               LT   L       P++  + +       +  +G++   + C 
Sbjct: 447  QGGLTDLGLSYIGQYSPNVRWMLLGYVGE--S-DEGLMEFSRGCP 488

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 56.8 bits (138), Expect = 2e-08
 Identities = 27/111 (24%), Positives = 45/111 (40%), Gaps = 14/111 (12%)

Query: 569 LKVLSLSGIHFS---SLSSSLGHLINLQTLCL-DWCQLEDV--AAIGQLKKLEILSFRYS 622
           +  L LSG++      + SSL +L  L  L +     L      AI +L +L  L   ++
Sbjct: 52  VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111

Query: 623 DIK-QLPLEIGQLAQLQLLDLSNCS---SLVVIAPNVISKFSRLEELYMGD 669
           ++   +P  + Q+  L  LD S  +   +L    P  IS    L  +    
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDFSYNALSGTL----PPSISSLPNLVGITFDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 50.6 bits (122), Expect = 2e-06
 Identities = 26/106 (24%), Positives = 38/106 (35%), Gaps = 10/106 (9%)

Query: 549 LANGDSYLEISHLFFEGT-------EDLKVLSLSGIHFS-SLSSSLGHLINLQTLCLDWC 600
            +   + + IS     G         +L  + LS        S   G   N Q + L   
Sbjct: 172 FSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN 231

Query: 601 QLE-DVAAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLSN 644
            L  D+  +G  K L  L  R + I   LP  + QL  L  L++S 
Sbjct: 232 SLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF 277

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 45.2 bits (108), Expect = 7e-05
 Identities = 25/139 (17%), Positives = 49/139 (35%), Gaps = 21/139 (15%)

Query: 540 CPQLKLLLLLANGDSYL------EISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINL 592
             QL  L +       +       +S +     + L  L  S    S +L  S+  L NL
Sbjct: 100 LTQLHYLYITHT---NVSGAIPDFLSQI-----KTLVTLDFSYNALSGTLPPSISSLPNL 151

Query: 593 QTLCLDWCQLEDV--AAIGQLKKL-EILSFRYSDIK-QLPLEIGQLAQLQLLDLSNCSSL 648
             +  D  ++      + G   KL   ++   + +  ++P     L  L  +DLS    L
Sbjct: 152 VGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRN-ML 209

Query: 649 VVIAPNVISKFSRLEELYM 667
              A  +       +++++
Sbjct: 210 EGDASVLFGSDKNTQKIHL 228

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 55.8 bits (135), Expect = 2e-08
 Identities = 31/131 (23%), Positives = 49/131 (37%), Gaps = 19/131 (14%)

Query: 569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP 628
           ++  +    +  SL+  +    NL+ L L   Q+ D++ +  L KLE LS   + +K   
Sbjct: 43  VQNFNGDNSNIQSLAG-MQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKN-- 99

Query: 629 LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAEL 688
           L     A L  L L N   L       +     LE L +              N  L  +
Sbjct: 100 LNGIPSACLSRLFLDNN-ELRDTDS--LIHLKNLEILSI-------------RNNKLKSI 143

Query: 689 KGLSKLTTLEI 699
             L  L+ LE+
Sbjct: 144 VMLGFLSKLEV 154

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 52.3 bits (126), Expect = 3e-07
 Identities = 24/123 (19%), Positives = 46/123 (37%), Gaps = 9/123 (7%)

Query: 536 ERLECPQLKLLLLLANGDSYLEISHL-FFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQT 594
             +    L  L L  N     E+         ++L++LS+      S+   LG L  L+ 
Sbjct: 101 NGIPSACLSRLFLDNN-----ELRDTDSLIHLKNLEILSIRNNKLKSIVM-LGFLSKLEV 154

Query: 595 LCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPN 654
           L L   ++ +   + +LKK+  +          P++     +L + +         I+P 
Sbjct: 155 LDLHGNEITNTGGLTRLKKVNWIDLTGQKCVNEPVKY--QPELYITNTVKDPDGRWISPY 212

Query: 655 VIS 657
            IS
Sbjct: 213 YIS 215

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 56.8 bits (137), Expect = 3e-08
 Identities = 57/365 (15%), Positives = 115/365 (31%), Gaps = 42/365 (11%)

Query: 568 DLKVLSLSGIHFSSLSSS-LGHLINLQTLCLDWCQLE--DVAAIGQLKKLEILSFRYSDI 624
              +L++S  + S L +S +  L  L+ L +   +++  D++     ++LE L   ++ +
Sbjct: 22  KTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL 81

Query: 625 KQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNAS 684
            ++         L+ LDLS  +   +         S+L+ L +  S    +K      A 
Sbjct: 82  VKIS--CHPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGL--STTHLEKSSVLPIAH 137

Query: 685 LAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHG 744
           L   K L  L     + +D + L QD     L        E   I   + +T   ++L  
Sbjct: 138 LNISKVLLVLGETYGEKEDPEGL-QDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSN 196

Query: 745 LENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILH 804
           ++    L +N     L  L +     +L+ +     E         L+ +W         
Sbjct: 197 IKC--VLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTT------ 248

Query: 805 IVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFS 864
                          +   S+  +     +       D   ++LK + +         F 
Sbjct: 249 ---------------VWYFSISNVKLQGQLDFRDF--DYSGTSLKALSIHQVVSDVFGFP 291

Query: 865 FSIARNLLRLQKVKVASCNKLEMTVGPDREKPTT----SLGFNEIIADDDTAPKVGIPSS 920
            S    +     +K  + +   M       K +         N +     T         
Sbjct: 292 QSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLL-----TDTVFENCGH 346

Query: 921 LVNLK 925
           L  L+
Sbjct: 347 LTELE 351

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 52.9 bits (127), Expect = 5e-07
 Identities = 23/147 (15%), Positives = 58/147 (39%), Gaps = 9/147 (6%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG--IHFSSL 582
              + +   L       +L+ L+L  N    L          + L+ L +S   + +   
Sbjct: 338 DTVFENCGHLT------ELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEK 391

Query: 583 SSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDL 642
                   +L +L +    L D        ++++L    + IK +P ++ +L  LQ L++
Sbjct: 392 KGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNV 451

Query: 643 SNCSSLVVIAPNVISKFSRLEELYMGD 669
           ++   L  +   +  + + L+++++  
Sbjct: 452 ASN-QLKSVPDGIFDRLTSLQKIWLHT 477

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 52/360 (14%), Positives = 116/360 (32%), Gaps = 44/360 (12%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS 584
            +   DI  L       +L++L++  N   YL+IS   F+  ++L+ L LS      +S 
Sbjct: 35  ELWTSDILSLS------KLRILIISHNRIQYLDIS--VFKFNQELEYLDLSHNKLVKISC 86

Query: 585 SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLD 641
                +NL+ L L +   + +      G + +L+ L    + +++  +    +A L +  
Sbjct: 87  --HPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLP--IAHLNISK 142

Query: 642 LSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQV 701
           +                        +   FP        +N     +  +S  T   +++
Sbjct: 143 VLLVLGETYGEKEDPEGLQDFNTESLHIVFP--------TNKEFHFILDVSVKTVANLEL 194

Query: 702 QDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLL 761
            + + + +D                       ++     +L  L   +          +L
Sbjct: 195 SNIKCVLEDNKCSYFLSIL-------------AKLQTNPKLSNLTLNNIETTWNSFIRIL 241

Query: 762 KLTEDIRLEELTGVQNVVHELDDGEGFP----RLKHLWVERCSEILHIVGSVGRVHRKVF 817
           +L     +   +     +    D   F      LK L + +    +              
Sbjct: 242 QLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSN 301

Query: 818 PLLESLSLYKLINLEAICHSQLREDQF--FSN--LKIIEVESCDKLKHLFSFSIARNLLR 873
             +++ ++     +  +C S++       FSN  L     E+C  L  L +  +  N L+
Sbjct: 302 MNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLK 361

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 56.4 bits (136), Expect = 4e-08
 Identities = 23/115 (20%), Positives = 39/115 (33%), Gaps = 15/115 (13%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           +  LP      +L  L    N  + L            LK L +SG   +SL        
Sbjct: 193 LASLPTLP--SELYKLWAYNNRLTSLP------ALPSGLKELIVSGNRLTSLPVLPS--- 241

Query: 591 NLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
            L+ L +   +L  +      L  L   S   + + +LP  +  L+    ++L  
Sbjct: 242 ELKELMVSGNRLTSLPMLPSGLLSL---SVYRNQLTRLPESLIHLSSETTVNLEG 293

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 15/77 (19%), Positives = 31/77 (40%), Gaps = 6/77 (7%)

Query: 569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQL 627
             VL++     ++L   L    ++ TL +    L  + A   +L+ LE+     + +  L
Sbjct: 42  NAVLNVGESGLTTLPDCLPA--HITTLVIPDNNLTSLPALPPELRTLEV---SGNQLTSL 96

Query: 628 PLEIGQLAQLQLLDLSN 644
           P+    L +L +     
Sbjct: 97  PVLPPGLLELSIFSNPL 113

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.0 bits (122), Expect = 2e-06
 Identities = 34/157 (21%), Positives = 53/157 (33%), Gaps = 37/157 (23%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
           +  LP     P L  L + +N  ++L            L  L + G   +SL        
Sbjct: 93  LTSLPVLP--PGLLELSIFSNPLTHLPALP------SGLCKLWIFGNQLTSLPVLPP--- 141

Query: 591 NLQTLCLDWCQLEDV-AAIGQLKKLEI-----------------LSFRYSDIKQLPLEIG 632
            LQ L +   QL  + A   +L KL                   LS   + +  LP    
Sbjct: 142 GLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLASLPTLPS 201

Query: 633 QLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD 669
           +L +L   +    +SL    P + S    L+EL +  
Sbjct: 202 ELYKLWAYNN-RLTSL----PALPSG---LKELIVSG 230

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 54.2 bits (131), Expect = 8e-08
 Identities = 33/145 (22%), Positives = 57/145 (39%), Gaps = 12/145 (8%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSL-G 587
           ++ L        P+L++L L       +E     ++    L  L L+G    SL+     
Sbjct: 40  LRHLGSYSFFSFPELQVLDLSRCEIQTIEDG--AYQSLSHLSTLILTGNPIQSLALGAFS 97

Query: 588 HLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEIG---QLAQLQLLDL 642
            L +LQ L      L  +    IG LK L+ L+  ++ I+   L       L  L+ LDL
Sbjct: 98  GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP-EYFSNLTNLEHLDL 156

Query: 643 SNCSSLVVIAPNVISKFSRLEELYM 667
           S+   +  I    +    ++  L +
Sbjct: 157 SSN-KIQSIYCTDLRVLHQMPLLNL 180

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 54.2 bits (131), Expect = 9e-08
 Identities = 34/142 (23%), Positives = 51/142 (35%), Gaps = 18/142 (12%)

Query: 568 DLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDI 624
             K L LS      L S S      LQ L L  C+++ +   A   L  L  L    + I
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 625 KQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFPQWDKVEG 679
           + L L     L+ LQ L      +L  +    I     L+EL +      SF        
Sbjct: 89  QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFK-----LP 142

Query: 680 GSNASLAELKGLS----KLTTL 697
              ++L  L+ L     K+ ++
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQSI 164

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 43.0 bits (102), Expect = 4e-04
 Identities = 21/149 (14%), Positives = 57/149 (38%), Gaps = 13/149 (8%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS--L 586
           IQ L          L+ L+ +    +   + +      + LK L+++     S       
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLA--SLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 587 GHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR----YSDIKQLPLEIGQLAQLQLL 640
            +L NL+ L L   +++ +    +  L ++ +L+       + +  +     +  +L+ L
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKEL 205

Query: 641 DLSNCSSLVVIAPNVISKFSRLEELYMGD 669
            L     L  +   +  + + L+++++  
Sbjct: 206 ALDTN-QLKSVPDGIFDRLTSLQKIWLHT 233

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 54.1 bits (130), Expect = 2e-07
 Identities = 64/360 (17%), Positives = 118/360 (32%), Gaps = 46/360 (12%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS 584
            +   DI  L       +L++L L  N    L+     F   +DL+ L +S     ++S 
Sbjct: 66  ELRMPDISFLS------ELRVLRLSHNRIRSLDFH--VFLFNQDLEYLDVSHNRLQNISC 117

Query: 585 SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLD 641
               + +L+ L L +   + +      G L KL  L    +  +QL L       L  + 
Sbjct: 118 --CPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCIL 175

Query: 642 LSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQV 701
           L   S    I               +   F          N S+  L  L  L+ +++  
Sbjct: 176 LDLVSYH--IKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQ-LSNIKLND 232

Query: 702 QDAQMLPQDL--VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKM 759
           ++ Q L   L  +        + +      W+ + +  +      +E ++  + N     
Sbjct: 233 ENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLN--IYN----- 285

Query: 760 LLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPL 819
            L +TE I  EE T  +  +  L        ++H+  +        + S       VF  
Sbjct: 286 -LTITERIDREEFTYSETALKSL-------MIEHVKNQVFLFSKEALYS-------VFAE 330

Query: 820 LESLSLY--KLINLEAICHSQLREDQF--FSN--LKIIEVESCDKLKHLFSFSIARNLLR 873
           +    L       +  +C        F  F+         + C  LK L +  + RN L+
Sbjct: 331 MNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLK 390

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 43.3 bits (102), Expect = 4e-04
 Identities = 25/134 (18%), Positives = 55/134 (41%), Gaps = 9/134 (6%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSL-----GHLINLQTL 595
            +L+ L+L  NG             T+++  L    +  +SL+S           ++  L
Sbjct: 377 KRLQTLILQRNGLKNFFKV---ALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVL 433

Query: 596 CLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNV 655
            L    L          K+++L    + I  +P ++  L  LQ L++++ + L  +   V
Sbjct: 434 NLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVAS-NQLKSVPDGV 492

Query: 656 ISKFSRLEELYMGD 669
             + + L+ +++ D
Sbjct: 493 FDRLTSLQYIWLHD 506

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 36/162 (22%), Positives = 63/162 (38%), Gaps = 20/162 (12%)

Query: 568 DLKVLSLSGIHFSSLSS--SLGHLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSD 623
              +L LS  + S L +  +   L NL +L L    L  ++  A   +  L  L    + 
Sbjct: 40  YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH 99

Query: 624 IKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFPQWDKVE 678
           +  L   +   L  L++L L N   +VV+  N     ++L++LY+       FP      
Sbjct: 100 LHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQLQKLYLSQNQISRFP------ 152

Query: 679 GGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYR 720
                 + +   L KL  L++     + LP      +LP + 
Sbjct: 153 ---VELIKDGNKLPKLMLLDLSSNKLKKLPLT-DLQKLPAWV 190

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 52.7 bits (127), Expect = 2e-07
 Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 13/152 (8%)

Query: 563 FEGTEDLKVLSLSGIHFSSLSSSL-GHLINLQTLCLDWCQLEDVAA--IGQLKKLEILSF 619
           F     L++L L+     +L + +   L NL+TL +   +L+ +      QL  L  L  
Sbjct: 57  FHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRL 116

Query: 620 RYSDIKQLPLEI-GQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE 678
             + +K LP  +   L +L  L L     L  +   V  K + L+EL + ++  Q  +V 
Sbjct: 117 DRNQLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYNN--QLKRVP 173

Query: 679 GGSNASLAELKGLSKLTTLEIQVQDAQMLPQD 710
            G+         L++L TL++     + +P+ 
Sbjct: 174 EGA------FDKLTELKTLKLDNNQLKRVPEG 199

>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 = 54.0 bits (130), Expect = 2e-07
 Identities = 81/582 (13%), Positives = 173/582 (29%), Gaps = 104/582 (17%)

Query: 578  HFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL--PLEIGQ 633
             F +L+     L   + L L +  +  V  ++   L++L++L                  
Sbjct: 12   RFCNLTQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRN 71

Query: 634  LAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLS- 692
            L  L++LDL +   +  + P+       L EL +         ++ G   +L  L  L  
Sbjct: 72   LPNLRILDLGSS-KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDL 130

Query: 693  ---KLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVS 749
               ++ +L +     ++    L  ++    +I +     +     +   L       N  
Sbjct: 131  SKNQIRSLYLHPSFGKL--NSLKSIDFSSNQIFLVCEHEL--EPLQGKTLSFFSLAANSL 186

Query: 750  TLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVG-- 807
                +      +    ++ LE L    N       G     +            HI+G  
Sbjct: 187  YSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAG 246

Query: 808  ----SVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQF--FSNLKIIEVESCDKLKH 861
                ++    +  F  L   S+ + ++L       L    F    +LK++ +    K+  
Sbjct: 247  FGFHNIKDPDQNTFAGLARSSV-RHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN-KINK 304

Query: 862  LFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSL 921
            +   +    L  LQ +                     +L +N +     +    G+P  +
Sbjct: 305  IADEAF-YGLDNLQVL---------------------NLSYNLLGELYSSN-FYGLP-KV 340

Query: 922  VNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLER 981
              + + K   I  I     +          +L+ L L   + LT+          PS+  
Sbjct: 341  AYIDLQKN-HIAIIQDQTFKF-------LEKLQTLDLRD-NALTTIHF------IPSIPD 385

Query: 982  VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGFRDI 1041
            + +     + T  +  L+                L H   N L ++       ++    +
Sbjct: 386  IFL-SGNKLVTLPKINLT--------------ANLIHLSENRLENL--DILYFLLRVPHL 428

Query: 1042 WYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTN------MSSAIPANLLRCLNNL 1095
              L L+   R               +    L               + +  ++   L++L
Sbjct: 429  QILILNQ-NRFSSC-----SGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHL 482

Query: 1096 RRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDL 1137
            + L + +         L  L         +F  L+ LR + L
Sbjct: 483  QVLYLNHN-------YLNSLPPG------VFSHLTALRGLSL 511

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

 Score = 52.1 bits (125), Expect = 1e-06
 Identities = 82/511 (16%), Positives = 161/511 (31%), Gaps = 84/511 (16%)

Query: 528 YGDIQELPERLECPQLKLLLLLANGDSYLEISHL---FFEGTEDLKVLSLSG--IHFSSL 582
           + ++ ++P+ L     + LLL     S+  I  +    F   E L++L L       +  
Sbjct: 13  FCNLTQVPQVL--NTTERLLL-----SFNYIRTVTASSFPFLEQLQLLELGSQYTPLTID 65

Query: 583 SSSLGHLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLE---IGQLAQL 637
             +  +L NL+ L L   ++  +   A   L  L  L   +  +    L+      L  L
Sbjct: 66  KEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKAL 125

Query: 638 QLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
             LDLS      +       K + L+ +         +++       L  L+G + L+  
Sbjct: 126 TRLDLSKNQIRSLYLHPSFGKLNSLKSIDF-----SSNQIFLVCEHELEPLQGKT-LSFF 179

Query: 698 EIQVQDAQMLPQDLVFVELPRYRICI------------GEAWGIWRANSETSRLVQLHGL 745
            +                +  +R  +             +  G +      S+   L   
Sbjct: 180 SLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILA 239

Query: 746 ENVSTL-LENYGMKMLLKLT----EDIRLEELTGVQNVVHELDDG--EGFPRLKHLWVER 798
            ++       + +K   + T        +  L      V  L+    E    LK L +  
Sbjct: 240 HHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAY 299

Query: 799 CS---------------EILHIVG-SVGRVHRKVF---PLLESLSLY------------- 826
                            ++L++    +G ++   F   P +  + L              
Sbjct: 300 NKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFK 359

Query: 827 KLINLEA--ICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNK 884
            L  L+   +  + L    F  ++  I   S +KL  L   ++  NL+ L + ++ + + 
Sbjct: 360 FLEKLQTLDLRDNALTTIHFIPSIPDI-FLSGNKLVTLPKINLTANLIHLSENRLENLDI 418

Query: 885 LEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVK 944
           L   +     +    L  N   +            SL  L + +          +  +V 
Sbjct: 419 LYFLLRVPHLQ-ILILNQNRFSSCSGDQ-TPSENPSLEQLFLGENMLQLAWETELCWDVF 476

Query: 945 ENRIAFSELKVLIL--NYLSRLTSFCLENYT 973
           E     S L+VL L  NYL+ L      + T
Sbjct: 477 EG---LSHLQVLYLNHNYLNSLPPGVFSHLT 504

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 52.7 bits (126), Expect = 6e-07
 Identities = 23/138 (16%), Positives = 40/138 (28%), Gaps = 34/138 (24%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSGIHFSSLSSSLGH 588
           +  LPE      LK L +  N  + L    + L        + ++      + L      
Sbjct: 112 LSTLPELP--ASLKHLDVDNNQLTMLPELPALL--------EYINADNNQLTMLPELPTS 161

Query: 589 LI-----------------NLQTLCLDWCQLEDV-AAIGQLKKLE----ILSFRYSDIKQ 626
           L                  +L+ L +    LE + A   +    E        R + I  
Sbjct: 162 LEVLSVRNNQLTFLPELPESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITH 221

Query: 627 LPLEIGQLAQLQLLDLSN 644
           +P  I  L     + L +
Sbjct: 222 IPENILSLDPTCTIILED 239

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 26/142 (18%), Positives = 48/142 (33%), Gaps = 24/142 (16%)

Query: 531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLI 590
              L +     Q   L L     + L +S L       + VL ++     SL        
Sbjct: 49  AVSLLKECLINQFSELQL-----NRLNLSSLPDNLPPQITVLEITQNALISLPELPA--- 100

Query: 591 NLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNC--SS 647
           +L+ L     +L  +      LK L++     + +  LP        L+ ++  N   + 
Sbjct: 101 SLEYLDACDNRLSTLPELPASLKHLDV---DNNQLTMLPELPA---LLEYINADNNQLTM 154

Query: 648 LVVIAPNVISKFSRLEELYMGD 669
           L    P +    + LE L + +
Sbjct: 155 L----PELP---TSLEVLSVRN 169

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 52.1 bits (125), Expect = 8e-07
 Identities = 41/203 (20%), Positives = 68/203 (33%), Gaps = 13/203 (6%)

Query: 531 IQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LG 587
           I EL E        L+ L +       L I +  F G   L +L L    F  L +    
Sbjct: 42  IAELNETSFSRLQDLQFLKVEQQTPG-LVIRNNTFRGLSSLIILKLDYNQFLQLETGAFN 100

Query: 588 HLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRYSDIKQLPLEI--GQLAQLQLLD 641
            L NL+ L L  C L+           L  LE+L  R ++IK++        + +  +LD
Sbjct: 101 GLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLD 160

Query: 642 LSNCSSLVVIAPNVISKF--SRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI 699
           L+  + +  I    +  F       L +     Q                  + +TTL++
Sbjct: 161 LTF-NKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDL 219

Query: 700 QVQDAQMLPQDLVFVELPRYRIC 722
                +       F  +   +I 
Sbjct: 220 SGNGFKESMAKRFFDAIAGTKIQ 242

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 50.7 bits (121), Expect = 1e-06
 Identities = 33/152 (21%), Positives = 53/152 (34%), Gaps = 13/152 (8%)

Query: 529 GDIQELPERLECPQLKLLLL--LANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SS 585
           G           P L +L L  ++       ++ L       LKVLS++  H  + S   
Sbjct: 109 GTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQ 168

Query: 586 LGHLINLQTLCLDWCQLEDVAAI------GQLKKLEILSFRYSDIKQLPLEIGQLA---- 635
           +     L TL L          +       +   L++L+ R + ++        LA    
Sbjct: 169 VRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARV 228

Query: 636 QLQLLDLSNCSSLVVIAPNVISKFSRLEELYM 667
           QLQ LDLS+ S             S+L  L +
Sbjct: 229 QLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNL 260

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 42.2 bits (99), Expect = 6e-04
 Identities = 25/107 (23%), Positives = 42/107 (39%), Gaps = 5/107 (4%)

Query: 541 PQLKLLLLLANGDSYLE-ISHLFFEGTEDLKVLSLSG--IHFSSLSSSLGHLINLQTLCL 597
           P L++L L   G      +          L+ L LS   +  ++ + S      L +L L
Sbjct: 201 PTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNL 260

Query: 598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
            +  L+ V   G   KL +L   Y+ + + P    +L Q+  L L  
Sbjct: 261 SFTGLKQVPK-GLPAKLSVLDLSYNRLDRNPS-PDELPQVGNLSLKG 305

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 51.1 bits (122), Expect = 2e-06
 Identities = 44/315 (13%), Positives = 91/315 (28%), Gaps = 60/315 (19%)

Query: 540 CPQLKLLLL----LANGDSYLEISHLFFEGTEDLKVLS-LSGIHFSSLSSSLGHLINLQT 594
            PQL+ L                  +   G ++L+ LS       + L +       L T
Sbjct: 234 APQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTT 293

Query: 595 LCLDWCQLED---VAAIGQLKKLEILSFRY----SDIKQLPLEIGQLAQLQLLDLSNCSS 647
           L L +  ++    V  + Q  KL+ L        + ++ L         L+ L +     
Sbjct: 294 LNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVL---ASTCKDLRELRVFPSEP 350

Query: 648 LVVIAPNVIS---------KFSRLEELYMGDSFPQWDKVEGGSNASLAEL-KGLSKLTTL 697
            V+     ++            +LE +               +NA+L  + +    +T  
Sbjct: 351 FVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQM--------TNAALITIARNRPNMTRF 402

Query: 698 EIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGM 757
            + + +           + P Y        G          L +L    ++S LL +   
Sbjct: 403 RLCIIE----------PKAPDYLTLEPLDIGFGAIVEHCKDLRRL----SLSGLLTDKVF 448

Query: 758 KMLLKLTEDIRLEELTGVQNVVHELDDG-----EGFPRLKHLWVERCSEILHIVGSVGRV 812
           + +    + + +  +    +     D G      G   L+ L +  C             
Sbjct: 449 EYIGTYAKKMEMLSVAFAGD----SDLGMHHVLSGCDSLRKLEIRDC----PFGDKALLA 500

Query: 813 HRKVFPLLESLSLYK 827
           +      + SL +  
Sbjct: 501 NASKLETMRSLWMSS 515

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 68/394 (17%), Positives = 127/394 (32%), Gaps = 81/394 (20%)

Query: 540 CPQLKLLLLLANGDSYLEISHL--FFEGTEDLKVLSLSG----IHFSSLSSSLGHLINLQ 593
           C  LK L L  +    +    L  F +    L  L++S     + FS+L   +    NL+
Sbjct: 155 CRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLK 214

Query: 594 TLCLDWC-QLEDVAAIG----QLKKLEILSFRYSDIKQLPLEIGQLAQ--LQLLDLSNCS 646
           +L L+    LE +A +     QL++L    +       +   +        +L  LS   
Sbjct: 215 SLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFW 274

Query: 647 SLVVIA-PNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI--QVQD 703
             V    P V S  SRL  L +  +          S   +  L    KL  L +   ++D
Sbjct: 275 DAVPAYLPAVYSVCSRLTTLNLSYAT-------VQSYDLVKLLCQCPKLQRLWVLDYIED 327

Query: 704 AQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLE---------- 753
           A +        +L   R+             E +  +   GL +VS              
Sbjct: 328 AGLEVLASTCKDLRELRVF-----PSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCR 382

Query: 754 ---NYGMKMLLKLTEDIRLEELTGVQNVVHE------LDDG-----EGFPRLKHLWVERC 799
              N  +  + +   ++    L  ++    +      LD G     E    L+ L +   
Sbjct: 383 QMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGL 442

Query: 800 ---SEILHIVGSVGRVHRKVFPLLESLSLYK-------LINLEAICHSQLREDQFFSNLK 849
                  +I              +E LS+         + ++ + C           +L+
Sbjct: 443 LTDKVFEYIG--------TYAKKMEMLSVAFAGDSDLGMHHVLSGCD----------SLR 484

Query: 850 IIEVESCDKLKHLFSFSIARNLLRLQKVKVASCN 883
            +E+  C         + A  L  ++ + ++SC+
Sbjct: 485 KLEIRDCPFGDKA-LLANASKLETMRSLWMSSCS 517

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 43.0 bits (101), Expect = 6e-04
 Identities = 51/362 (14%), Positives = 109/362 (30%), Gaps = 80/362 (22%)

Query: 556 LEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLE 615
           +E+         +L      G  +  + +       L+ + L    + D         LE
Sbjct: 71  VELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDC-------LE 123

Query: 616 ILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS-----SLVVIAPNVISKFSRLEELYMGDS 670
           +++  +                ++L LS+C       L  IA    +    L+EL + +S
Sbjct: 124 LIAKSFK-------------NFKVLVLSSCEGFSTDGLAAIA----ATCRNLKELDLRES 166

Query: 671 FPQWDKVEGGSNASLAEL-KGLSKLTTLEI-----QVQD------AQMLPQDLVFVELPR 718
                 V+  S   L+      + L +L I     +V            P  L  ++L R
Sbjct: 167 -----DVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPN-LKSLKLNR 220

Query: 719 YRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIR-LEELTGVQN 777
               +     +        +L +L G    +  +       L       + L  L+G  +
Sbjct: 221 ---AVP-LEKLATLLQRAPQLEEL-GTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWD 275

Query: 778 VVHE--LDDGEGFPRLKHLWVERCS----EILHIVGSVGRVHRKVFPLLESLSLYKLINL 831
            V            RL  L +   +    +++ ++           P L+ L +   I  
Sbjct: 276 AVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQ--------CPKLQRLWVLDYIED 327

Query: 832 EAICHSQLREDQFFSNLKIIEVESCDKLKHLFSF--------SIARNLLRLQKVKVASCN 883
             +            +L+ + V   +      +         S++    +L+ V +  C 
Sbjct: 328 AGLEVL----ASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCR 382

Query: 884 KL 885
           ++
Sbjct: 383 QM 384

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.6 bits (100), Expect = 7e-04
 Identities = 50/408 (12%), Positives = 114/408 (27%), Gaps = 101/408 (24%)

Query: 792  KHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKII 851
            + +++  C  +     S   V R+ FP + S+ L    +             +       
Sbjct: 46   RKVFIGNCYAV-----SPATVIRR-FPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEA 99

Query: 852  EVESCDKLKHL-FSFS---------IARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLG 901
               S   L+ +              IA++    + + ++SC               ++ G
Sbjct: 100  MSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGF------------STDG 147

Query: 902  FNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYL 961
               I A            +L  L + +   ++++ GH      +   +   L   I    
Sbjct: 148  LAAIAAT---------CRNLKELDLRES-DVDDVSGHWLSHFPDTYTSLVSLN--ISCLA 195

Query: 962  SRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEG 1021
            S ++   LE      P+L+ + + R   +    + + ++ +            +L     
Sbjct: 196  SEVSFSALERLVTRCPNLKSLKLNRAVPL----EKLATLLQRAP---------QLEELGT 242

Query: 1022 NNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMS 1081
                + ++                        +++ G ++ +S    L  L      +  
Sbjct: 243  GGYTAEVRP-----------------------DVYSGLSVALSGCKELRCL--SGFWDAV 277

Query: 1082 SAIPANLLRCLNNLRRLEVRNC----DSLEEVLR----LEELNADK-------EHIGPMF 1126
             A    +    + L  L +         L ++L     L+ L           E +    
Sbjct: 278  PAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTC 337

Query: 1127 PKLSNLRLIDLPKLK--RFCNFTGNIIE-----LPELRYLTIENCPDM 1167
              L  LR+              T   +       P+L  + +  C  M
Sbjct: 338  KDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQM 384

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.6 bits (100), Expect = 8e-04
 Identities = 35/178 (19%), Positives = 65/178 (36%), Gaps = 31/178 (17%)

Query: 540 CPQLKLLLLLANGDSYLEIS----HLFFEGTEDLKVLSLSGI-HFS--SLSSSLGHLINL 592
              L+ + L       + ++     L  +  ++ KVL LS    FS   L++      NL
Sbjct: 104 YTWLEEIRL-----KRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNL 158

Query: 593 QTLCLDWCQLEDVAAIG------QLKKLEILSFRY-------SDIKQLPLEIGQLAQLQL 639
           + L L    ++DV+             L  L+          S +++L   + +   L+ 
Sbjct: 159 KELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERL---VTRCPNLKS 215

Query: 640 LDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
           L L+    L  +A  ++ +  +LEEL  G    +        +     L G  +L  L
Sbjct: 216 LKLNRAVPLEKLAT-LLQRAPQLEELGTGGYTAEVR--PDVYSGLSVALSGCKELRCL 270

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.6 bits (100), Expect = 8e-04
 Identities = 56/421 (13%), Positives = 107/421 (25%), Gaps = 96/421 (22%)

Query: 786  EGFPRLKHLWVERCSEI----LHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLRE 841
            + F   K L +  C       L  + +           L+ L L +              
Sbjct: 127  KSFKNFKVLVLSSCEGFSTDGLAAIAAT-------CRNLKELDLRE-------SDVDDVS 172

Query: 842  DQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVK--VASCNKLEMTVGPDREKPTTS 899
              + S+      ++   L  L + S   + +    ++  V  C  L+            S
Sbjct: 173  GHWLSHF----PDTYTSLVSL-NISCLASEVSFSALERLVTRCPNLK------------S 215

Query: 900  LGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILN 959
            L  N  +  +  A  +     L  L             + G     +       ++  L+
Sbjct: 216  LKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGL----SVALSGCKELRCLS 271

Query: 960  YLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHH- 1018
                     L         L  +++         S  ++ +   C          +L   
Sbjct: 272  GFWDAVPAYLPAVYSVCSRLTTLNLSYATVQ---SYDLVKLLCQCP---------KLQRL 319

Query: 1019 -----WEGNNLNSIMQKYYKEMIGFRDIWYLQLSHFPRLKEIWHGQ------ALPVSFFN 1067
                  E   L  +           +D+  L++          +                
Sbjct: 320  WVLDYIEDAGLEVLAS-------TCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCP 372

Query: 1068 NLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSL-EEVLRLEELNADKEHIGPMF 1126
             L   V+  C  M++A    + R   N+ R  +   +    + L LE L+     I    
Sbjct: 373  KL-ESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHC 431

Query: 1127 PKLSNLRL-------------IDLPKLKR----FCNFTGNIIE-----LPELRYLTIENC 1164
              L  L L                 K++     F   +   +         LR L I +C
Sbjct: 432  KDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDC 491

Query: 1165 P 1165
            P
Sbjct: 492  P 492

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 29/138 (21%), Positives = 56/138 (40%), Gaps = 24/138 (17%)

Query: 568 DLKVLSLSGIH--FSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIK 625
           + + + L G+      + ++L  L   + L L    +E ++++  ++ L ILS   + IK
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK 83

Query: 626 QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFS------RLEELYMGDSFPQWDKVEG 679
           ++         L+ L +S          N I+  S       L  LYM ++     K+  
Sbjct: 84  KIENLDAVADTLEELWISY---------NQIASLSGIEKLVNLRVLYMSNN-----KIT- 128

Query: 680 GSNASLAELKGLSKLTTL 697
            +   + +L  L KL  L
Sbjct: 129 -NWGEIDKLAALDKLEDL 145

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 35/183 (19%), Positives = 65/183 (35%), Gaps = 32/183 (17%)

Query: 525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLF---FEGTEDLKVLSLSGIHFSS 581
            +   D + L        L  L+L+ N     +IS +    F     L+ L +S  H   
Sbjct: 68  ELRKDDFKGLQ------HLYALVLVNN-----KISKIHEKAFSPLRKLQKLYISKNHLVE 116

Query: 582 LSSSLGHLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQL 639
           +  +L    +L  L +   ++  V       L+ +  +    + ++    E G    L+L
Sbjct: 117 IPPNL--PSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKL 174

Query: 640 --LDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL 697
             L +S    L  I  ++      L EL++  +  +   +E         L   SKL  L
Sbjct: 175 NYLRISEA-KLTGIPKDL---PETLNELHLDHN--KIQAIELED------LLRYSKLYRL 222

Query: 698 EIQ 700
            + 
Sbjct: 223 GLG 225

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 26/134 (19%), Positives = 48/134 (35%), Gaps = 15/134 (11%)

Query: 568 DLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQLEDVA-AIGQLK--KLEILSFRYSD 623
            L  L +       +       L N+  + +    LE+     G     KL  L    + 
Sbjct: 124 SLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAK 183

Query: 624 IKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNA 683
           +  +P ++     L  L L + + +  I    + ++S+L  L +G +  +   +E GS  
Sbjct: 184 LTGIPKDL--PETLNELHLDH-NKIQAIELEDLLRYSKLYRLGLGHNQIR--MIENGS-- 236

Query: 684 SLAELKGLSKLTTL 697
               L  L  L  L
Sbjct: 237 ----LSFLPTLREL 246

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 45.8 bits (109), Expect = 3e-05
 Identities = 24/136 (17%), Positives = 52/136 (38%), Gaps = 25/136 (18%)

Query: 568 DLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQ 626
             + L L   H  ++ S +  +L N+  + +             L++LE  SF       
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSID--------VTLQQLESHSFY------ 77

Query: 627 LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD----SFPQWDKVEGGSN 682
                  L+++  +++ N  +L  I P+ + +   L+ L + +     FP   KV     
Sbjct: 78  ------NLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDI 131

Query: 683 ASLAELKGLSKLTTLE 698
             + E+     +T++ 
Sbjct: 132 FFILEITDNPYMTSIP 147

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 45.6 bits (108), Expect = 6e-05
 Identities = 26/122 (21%), Positives = 43/122 (35%), Gaps = 18/122 (14%)

Query: 540 CPQLKLLLLLANGDSYL---EISHLFFEGTEDLKVLSLSGIHF----SSLSSSLGHLINL 592
           C +L  L L  +         +       +E +  L+LSG       S LS+ +    NL
Sbjct: 167 CSRLDELNL--SWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNL 224

Query: 593 QTLCLDWCQL---EDVAAIGQLKKLEILSFRY----SDIKQLPLEIGQLAQLQLLDLSNC 645
             L L    +   +      QL  L+ LS           +  LE+G++  L+ L +   
Sbjct: 225 VHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIP--ETLLELGEIPTLKTLQVFGI 282

Query: 646 SS 647
             
Sbjct: 283 VP 284

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 29/174 (16%), Positives = 58/174 (33%), Gaps = 16/174 (9%)

Query: 534 LPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG--IHFSSLSSSLGHLIN 591
            P+       + ++      S+++           ++ + LS   I  S+L   L     
Sbjct: 60  HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSK 119

Query: 592 LQTLCLDWCQLEDVA--AIGQLKKLEILSFRY-SDIKQLPLE-IGQ-LAQLQLLDLSNCS 646
           LQ L L+  +L D     + +   L  L+    S   +  L+ +    ++L  L+LS C 
Sbjct: 120 LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF 179

Query: 647 SL--VVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAEL-KGLSKLTTL 697
                 +   V      + +L +               + L+ L +    L  L
Sbjct: 180 DFTEKHVQVAVAHVSETITQLNLSGYRKNL------QKSDLSTLVRRCPNLVHL 227

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 34/178 (19%), Positives = 60/178 (33%), Gaps = 33/178 (18%)

Query: 540 CPQLKLLLLLA---NGDSYLEISHLFFEGTEDLKVLSLSGIHF---SSLSSSLGHLINLQ 593
           C +L+ L L     +      ++        +L  L+LSG       +L + L     L 
Sbjct: 117 CSKLQNLSLEGLRLSDPIVNTLAKN-----SNLVRLNLSGCSGFSEFALQTLLSSCSRLD 171

Query: 594 TLCLDWCQLEDVAAIGQL-----KKLEILSFRY-------SDIKQLPLEIGQLAQLQLLD 641
            L L WC       +        + +  L+          SD+  L   + +   L  LD
Sbjct: 172 ELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL---VRRCPNLVHLD 228

Query: 642 LSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI 699
           LS+   L         + + L+ L +        +       +L EL  +  L TL++
Sbjct: 229 LSDSVMLKNDCFQEFFQLNYLQHLSL-------SRCYDIIPETLLELGEIPTLKTLQV 279

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 18/106 (16%), Positives = 37/106 (34%), Gaps = 5/106 (4%)

Query: 567 EDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQ 626
              + L L G     + +    L     +     ++  +     L++L+ L    + I +
Sbjct: 19  VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICR 78

Query: 627 LPLEIGQ-LAQLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGD 669
           +   + Q L  L  L L+N     L  + P  ++    L  L +  
Sbjct: 79  IGEGLDQALPDLTELILTNNSLVELGDLDP--LASLKSLTYLCILR 122

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 25/117 (21%), Positives = 46/117 (39%), Gaps = 6/117 (5%)

Query: 556 LEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLE 615
           LE+ +       +L VL     +   +       +NL+ L L    L  V+ + +L KL+
Sbjct: 16  LELRNRTPAAVREL-VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLK 74

Query: 616 ILSFRYSDIKQL-PLEIGQLAQLQLLDLSNC--SSLVVIAPNVISKFSRLEELYMGD 669
            L    + I     +   +L  L  L+LS      +  + P  + K   L+ L + +
Sbjct: 75  KLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEP--LKKLECLKSLDLFN 129

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 25/115 (21%), Positives = 43/115 (37%), Gaps = 6/115 (5%)

Query: 556 LEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLE 615
           LE+ +      ++L VL  S  +   L         L+ L      L  +A + +L KL+
Sbjct: 9   LELRNRTPSDVKEL-VLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLK 67

Query: 616 ILSFRYSDIKQL-PLEIGQLAQLQLLDLSNC--SSLVVIAPNVISKFSRLEELYM 667
            L    + +     +   +   L  L+LS      L  I P  + K   L+ L +
Sbjct: 68  KLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEP--LKKLENLKSLDL 120

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 42.9 bits (101), Expect = 5e-04
 Identities = 28/157 (17%), Positives = 60/157 (38%), Gaps = 8/157 (5%)

Query: 541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDW 599
           P+L  + +    ++ L I+   F+   +L+ L +S      L      H +    L +  
Sbjct: 79  PKLHEIRIE-KANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD 137

Query: 600 -CQLEDVAA---IGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNV 655
              +  +     +G   +  IL    + I+++        QL  L+LS+ ++L  +  +V
Sbjct: 138 NINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV 197

Query: 656 ISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLS 692
               S    L +  S  +   +      +L +L+  S
Sbjct: 198 FHGASGPVILDI--SRTRIHSLPSYGLENLKKLRARS 232

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	1209
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.98
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.97
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.96
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.96
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.96
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.94
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.94
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.93
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.93
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.93
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.91
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.9
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.89
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.89
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.86
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.85
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.83
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.83
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.83
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.82
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.81
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.81
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.81
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.79
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.78
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.76
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.74
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.74
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.73
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.73
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.71
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.71
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.69
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.68
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.68
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.68
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.67
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.67
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.66
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.66
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.65
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.64
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.62
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.62
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.62
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.61
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.6
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.59
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.58
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.58
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.57
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.56
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.54
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.53
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.53
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.53
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.52
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.52
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.51
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.51
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.49
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.48
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.48
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.48
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.47
2fna_A	357	Conserved hypothetical protein; structural genomic	99.47
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.47
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.47
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.47
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.46
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.46
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.43
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.42
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.41
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.39
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.39
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.39
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.39
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.38
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.38
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.35
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.34
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.33
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.32
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.32
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.31
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.3
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.3
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.29
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.28
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.27
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.26
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.25
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.24
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.24
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.24
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.23
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.23
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.22
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.22
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.21
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.21
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.21
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.19
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.17
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.16
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.16
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.14
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.13
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.13
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.12
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.11
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.11
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.09
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.09
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.08
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.06
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.03
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.03
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.03
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.02
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.99
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.99
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.95
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.93
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.92
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.88
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.87
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.86
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.84
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.84
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.74
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.69
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.69
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.68
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.59
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.46
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.45
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.42
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.4
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.27
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.27
3pvs_A	447	Replication-associated recombination protein A; ma	98.26
3bos_A	242	Putative DNA replication factor; P-loop containing	98.26
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.25
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.23
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.21
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.21
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.2
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.19
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.18
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.16
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.11
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.08
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.07
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.05
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.04
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.01
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.0
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.99
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.98
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.96
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.93
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.92
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.92
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.89
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.89
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.88
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.88
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.87
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.85
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.82
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.81
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.8
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.8
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.79
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.78
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.77
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.77
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.74
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.67
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.62
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.59
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.53
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.52
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.46
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.44
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.42
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.39
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.39
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.28
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.23
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.22
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.22
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.21
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.19
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.18
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.17
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.14
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.02
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.01
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.95
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.94
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.89
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.8
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.73
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.71
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.68
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.47
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.44
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.37
3io5_A	333	Recombination and repair protein; storage dimer, i	96.22
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.21
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.19
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.09
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.9
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.88
2qgz_A	308	Helicase loader, putative primosome component; str	95.85
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.84
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.64
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.59
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.55
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.55
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.44
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.43
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.4
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.3
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.3
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.12
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.12
2xxa_A	433	Signal recognition particle protein; protein trans	95.12
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.05
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.9
3ice_A	422	Transcription termination factor RHO; transcriptio	94.86
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.74
3co5_A	143	Putative two-component system transcriptional RES	94.72
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	94.52
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.5
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.44
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.42
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.36
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.3
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.19
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.05
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	93.82
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	93.73
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.62
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.51
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	93.45
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.38
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.38
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.37
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.3
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	93.26
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.25
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	93.24
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	93.08
2r44_A	331	Uncharacterized protein; putative ATPase, structur	93.0
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.97
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	92.85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	92.84
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	92.83
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	92.82
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	92.77
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	92.71
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	92.7
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	92.67
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	92.58
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	92.5
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	92.49
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.49
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.49
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	92.44
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	92.44
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	92.37
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.37
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	92.3
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	92.27
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	92.25
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	92.25
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	92.23
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	92.12
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	92.09
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	92.08
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	92.03
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	91.95
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	91.92
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	91.87
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	91.79
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.74
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	91.73
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	91.71
1via_A	175	Shikimate kinase; structural genomics, transferase	91.71
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	91.67
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	91.65
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	91.64
3l0o_A	427	Transcription termination factor RHO; helicase, RH	91.56
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	91.52
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	91.49
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	91.44
1tue_A	212	Replication protein E1; helicase, replication, E1E	91.42
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	91.4
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	91.4
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	91.35
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.34
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	91.34
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	91.29
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	91.17
2r6a_A	454	DNAB helicase, replicative helicase; replication,	91.14
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	91.11
3fwy_A	314	Light-independent protochlorophyllide reductase I	91.02
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	91.01
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	91.01
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	90.96
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	90.95
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	90.94
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	90.9
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	90.9
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	90.85
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	90.81
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	90.7
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	90.68
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	90.64
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	90.63
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	90.61
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	90.61
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	90.55
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	90.48
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	90.48
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	90.4
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	90.39
2vli_A	183	Antibiotic resistance protein; transferase, tunica	90.37
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	90.35
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	90.29
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	90.29
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	90.26
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	90.21
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	90.19
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	90.1
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	90.08
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	90.07
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	90.06
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	90.06
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.0
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	89.99
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	89.96
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	89.93
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	89.92
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	89.86
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	89.77
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	89.77
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	89.75
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	89.72
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	89.71
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	89.69
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	89.68
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	89.63
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	89.6
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	89.56
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	89.49
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	89.44
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	89.38
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	89.34
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	89.31
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	89.24
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	89.15
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	89.12
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	89.1
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	89.07
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	89.06
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	89.0
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	88.97
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	88.93
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	88.89
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	88.87
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	88.85
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	88.83
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	88.82
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	88.76
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	88.74
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	88.66
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	88.61
3end_A	307	Light-independent protochlorophyllide reductase ir	88.55
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	88.45
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	88.44
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	88.38
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	88.31
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	88.3
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	88.16
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	88.14
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	88.12
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	88.11
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	88.11
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	88.1
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	88.08
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	88.05
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	87.96
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	87.95
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	87.9
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	87.81
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	87.8
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	87.71
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	87.59
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	87.52
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	87.51
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	86.91
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	86.84
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	86.84
2og2_A	359	Putative signal recognition particle receptor; nuc	86.82
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	86.56
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	86.54
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	86.53
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	86.49
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	86.41
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	86.4
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	86.4
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	86.17
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	86.14
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	86.13
2eyu_A	261	Twitching motility protein PILT; pilus retraction	86.02
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	85.93
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	85.85
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	85.8
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	85.78
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	85.75
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	85.6
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	85.47
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	85.47
1b0u_A	262	Histidine permease; ABC transporter, transport pro	85.43
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	85.38
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	85.23
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	85.12
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	85.1
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	85.04
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	84.98
2wji_A	165	Ferrous iron transport protein B homolog; membrane	84.81
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	84.79
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	84.76
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	84.71
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	84.7
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	84.58
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	84.51
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	84.5
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	84.48
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	84.41
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	84.31
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	84.29
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	84.26
2ghi_A	260	Transport protein; multidrug resistance protein, M	84.24
1ji0_A	240	ABC transporter; ATP binding protein, structural g	84.23
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	84.19
2ged_A	193	SR-beta, signal recognition particle receptor beta	84.15
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	84.14
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	84.13
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	84.07
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	84.06
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	84.06
1sgw_A	214	Putative ABC transporter; structural genomics, P p	84.03
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	83.86
1g6h_A	257	High-affinity branched-chain amino acid transport	83.85
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	83.59
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	83.58
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	83.32
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	83.19
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	83.13
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	83.12
3cwq_A	209	Para family chromosome partitioning protein; alpha	83.07
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	82.99
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	82.91
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	82.76
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	82.74
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	82.68
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	82.62
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	82.61
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	82.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	82.55
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	82.51
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	82.43

>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=7.1e-42  Score=413.42  Aligned_cols=313  Identities=15%  Similarity=0.164  Sum_probs=238.6

Q ss_pred             hhHHHHHHHHHHHHhCC---CceEEEEEcCCCChHHHHHHHHHH--HHhhcccCCEEEEEEcCCCc--CHHHHHHHHHHH
Q 038494          162 DSRMKLFQDVVEALRND---KLNIIGVHGMGGVGKTTLVKQIAK--QVMEDKVFDKVVMAEVTENP--DVQKIQDKLASD  234 (1209)
Q Consensus       162 ~gR~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~~~~--~~~~~~~f~~~~wv~~s~~~--~~~~l~~~i~~~  234 (1209)
                      +||++++++|.++|...   ..++|+|+||||+||||||+++|+  +.+.+.+|++++||++++.+  ++..+++.|+++
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            39999999999999743   579999999999999999999998  56777889999999999985  899999999999


Q ss_pred             hCCCCC-------CCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          235 LDLNFD-------LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       235 l~~~~~-------~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      ++....       ...........+.+.+.+.|||||||||||+.+++ .+.     ..        +||+||||||++.
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~--------~gs~ilvTTR~~~  276 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QE--------LRLRCLVTTRDVE  276 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HH--------TTCEEEEEESBGG
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----cc--------CCCEEEEEcCCHH
Confidence            986532       11122344667777776324999999999998754 111     11        6999999999999


Q ss_pred             hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHHHHHh
Q 038494          308 LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLR  387 (1209)
Q Consensus       308 v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~~~l~  387 (1209)
                      ++.........|+|++|+.+|||+||.++++.....+++++++++|+++|+|+||||+++|+.++.+.   |+.+ +.+.
T Consensus       277 v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~---w~~~-~~l~  352 (549)
T 2a5y_B          277 ISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT---FEKM-AQLN  352 (549)
T ss_dssp             GGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS---HHHH-HHHH
T ss_pred             HHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch---HHHH-HHhH
Confidence            88642234468999999999999999999875544577888999999999999999999999998663   5443 3333


Q ss_pred             cCCCccccCccccceeeeEEecccCCchhHHHHHH-----------HhcccCcCccccHHHHHHhhh--hhccccccHHH
Q 038494          388 NSNPREIHGMDANVCSSIELSYNFLESDEAKSLFL-----------LCTLFGEGTPIQVASLLRYGK--GLFKNVRTLEN  454 (1209)
Q Consensus       388 ~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~-----------~~s~fp~~~~i~~~~li~~~~--g~i~~~~~~~~  454 (1209)
                      .... ..  ....+..++.+||+.||++ +|.||+           |||+||+++.|+.  -.++++  ||+........
T Consensus       353 ~~l~-~~--~~~~i~~~l~~Sy~~L~~~-lk~~f~~Ls~~er~l~~~ls~fp~~~~i~i--~~w~a~~~G~i~~~~~~~~  426 (549)
T 2a5y_B          353 NKLE-SR--GLVGVECITPYSYKSLAMA-LQRCVEVLSDEDRSALAFAVVMPPGVDIPV--KLWSCVIPVDICSNEEEQL  426 (549)
T ss_dssp             HHHH-HH--CSSTTCCCSSSSSSSHHHH-HHHHHHTSCHHHHHHTTGGGSSCTTCCEEH--HHHHHHSCC-------CCC
T ss_pred             HHhh-cc--cHHHHHHHHhcccccccHH-HHHHHhccchhhhhHhhheeeeCCCCeeee--eeeeeeccceeccCCCCCC
Confidence            2211 00  1356889999999999998 999999           9999999999992  233456  77754221111


Q ss_pred             HHHHHHHHHHHHHhcccccCCC--CCCceEehhHHHHHHHHHhhccc
Q 038494          455 ARNRVDALIDNLKASCLLLDGD--AEDEVKMHDVIHVVAVSIASEKL  499 (1209)
Q Consensus       455 ~~~~~~~~~~~L~~~~ll~~~~--~~~~~~mHdlv~~~~~~~~~~~~  499 (1209)
                      .++... ++++|+++||++...  ...+|+|||+||+||++++.+++
T Consensus       427 ~~~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          427 DDEVAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             THHHHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HHHHHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            222233 899999999998642  34689999999999999887763

>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=100.00  E-value=4.1e-35  Score=396.73  Aligned_cols=314  Identities=19%  Similarity=0.286  Sum_probs=249.4

Q ss_pred             cccccchhhHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhh-cc-cCCEEEEEEcCCCcC--HHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVME-DK-VFDKVVMAEVTENPD--VQKIQ  228 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~-~~-~f~~~~wv~~s~~~~--~~~l~  228 (1209)
                      +++...|+||++++++|.++|.  +++.++|+|+||||+||||||+++|++.+. .. +|+.++|++++...+  ....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            3446679999999999999996  456789999999999999999999987643 23 457899999998543  44456


Q ss_pred             HHHHHHhCCCCCC----CCChHHHHHHHHHHHhcCC--eEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEe
Q 038494          229 DKLASDLDLNFDL----NDSKPHRAKQLCQRLTKEK--RVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       229 ~~i~~~l~~~~~~----~~~~~~~~~~l~~~l~~~k--~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      ..++..++.....    ..........+...+. ++  |+||||||||+..+|+.+       .        +|++||||
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~LlvlDd~~~~~~~~~~-------~--------~~~~ilvT  263 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLML-RKHPRSLLILDDVWDPWVLKAF-------D--------NQCQILLT  263 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTS-SSSCSCEEEEESCCCHHHHTTT-------C--------SSCEEEEE
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHh-ccCCCEEEEEecCCCHHHHHhh-------c--------CCCEEEEE
Confidence            6777777654321    2233445555555554 45  999999999998877765       2        78999999


Q ss_pred             ccchhhhcccCCcceEEEcCC-CCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHH
Q 038494          303 SRSKHLLTNDMNSQKIFLIEV-LSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKD  381 (1209)
Q Consensus       303 tR~~~v~~~~~~~~~~~~l~~-L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~  381 (1209)
                      ||++.++...+.....+.+++ |+++||++||...++.  ..+++++.+++|+++|+|+||||+++|++|+.+. ..|..
T Consensus       264 tR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~--~~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~  340 (1249)
T 3sfz_A          264 TRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNM--KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAY  340 (1249)
T ss_dssp             ESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTS--CSTTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHH
T ss_pred             cCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCC--ChhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHH
Confidence            999998854566778899996 9999999999998853  2345667899999999999999999999999775 57999


Q ss_pred             HHHHHhcCCCccccC----ccccceeeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHHH
Q 038494          382 ALTQLRNSNPREIHG----MDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARN  457 (1209)
Q Consensus       382 ~~~~l~~~~~~~~~~----~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~  457 (1209)
                      +++++.......+..    ....+..++.+||+.||++ +|+||+|||+||+++.|+++.++.+|..      .    ++
T Consensus       341 ~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~~~~~~l~~f~~~~~i~~~~~~~~~~~------~----~~  409 (1249)
T 3sfz_A          341 YLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDL------E----TE  409 (1249)
T ss_dssp             HHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTT-THHHHHHGGGSCTTCCEEHHHHHHHHTC------C----HH
T ss_pred             HHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHH-HHHHHHHhCccCCCCeeCHHHHHHHhCC------C----HH
Confidence            999998766433322    1246889999999999998 9999999999999999999999998843      1    23


Q ss_pred             HHHHHHHHHHhcccccCCC--CCCceEehhHHHHHHHHHhhcc
Q 038494          458 RVDALIDNLKASCLLLDGD--AEDEVKMHDVIHVVAVSIASEK  498 (1209)
Q Consensus       458 ~~~~~~~~L~~~~ll~~~~--~~~~~~mHdlv~~~~~~~~~~~  498 (1209)
                      .+.+++++|++++|++...  ...+|+|||++|+|++..+.++
T Consensus       410 ~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          410 EVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            4456889999999998642  2336999999999999997765

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

Probab=100.00  E-value=9.5e-35  Score=349.92  Aligned_cols=283  Identities=17%  Similarity=0.185  Sum_probs=220.0

Q ss_pred             hhhHHHHHHHHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCE-EEEEEcCCCcCHHHHHHHHHHHhCCC
Q 038494          161 FDSRMKLFQDVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDK-VVMAEVTENPDVQKIQDKLASDLDLN  238 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~s~~~~~~~l~~~i~~~l~~~  238 (1209)
                      .+||++++++|.++|.. +..++|+|+||||+||||||+++|++.+++.+|+. ++|+++++.++...++..+++.++..
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            48999999999999975 55789999999999999999999998777778985 99999999999888888887754321


Q ss_pred             C---C--CC--CC----hHHHHHHHHHHHh--cCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          239 F---D--LN--DS----KPHRAKQLCQRLT--KEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       239 ~---~--~~--~~----~~~~~~~l~~~l~--~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                      .   .  ..  ..    .......+.+.+.  .++|+||||||||+.+.|+.+.               +||+||||||+
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~---------------pGSRILVTTRd  274 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN---------------LSCKILLTTRF  274 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH---------------SSCCEEEECSC
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC---------------CCeEEEEeccC
Confidence            1   1  00  11    1223344555441  3699999999999988887651               68999999999


Q ss_pred             hhhhcccCCcceEEEcC------CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcC--Chh
Q 038494          306 KHLLTNDMNSQKIFLIE------VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNK--KLP  377 (1209)
Q Consensus       306 ~~v~~~~~~~~~~~~l~------~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~--~~~  377 (1209)
                      +.++.. +.....+.++      +|+.+||++||.+..+..     ..++..+|   |+|+||||+++|+.|+.+  +.+
T Consensus       275 ~~Va~~-l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-----~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~e  345 (1221)
T 1vt4_I          275 KQVTDF-LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPREV---LTTNPRRLSIIAESIRDGLATWD  345 (1221)
T ss_dssp             SHHHHH-HHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-----TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHH
T ss_pred             hHHHHh-cCCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-----HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHH
Confidence            988742 2222344555      899999999999986432     23344444   999999999999999976  567


Q ss_pred             HHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhH-HHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHH
Q 038494          378 VWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEA-KSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENAR  456 (1209)
Q Consensus       378 ~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~-k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~  456 (1209)
                      .|...              ....+..++.+||+.||++ . |+||++||+||+++.|+.+.++.+|..-.     .    
T Consensus       346 eW~~~--------------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~I~~elLa~LW~aeG-----e----  401 (1221)
T 1vt4_I          346 NWKHV--------------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-----K----  401 (1221)
T ss_dssp             HHHHC--------------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC-----S----
T ss_pred             HHhcC--------------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC-----H----
Confidence            77642              1256889999999999998 7 99999999999999999999998886411     1    


Q ss_pred             HHHHHHHHHHHhcccccCCCCCCceEehhHHHHHH
Q 038494          457 NRVDALIDNLKASCLLLDGDAEDEVKMHDVIHVVA  491 (1209)
Q Consensus       457 ~~~~~~~~~L~~~~ll~~~~~~~~~~mHdlv~~~~  491 (1209)
                      +...+++++|+++||++..+...+|+|||++++++
T Consensus       402 edAe~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             HHHHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             HHHHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            13456899999999998765567899999999854

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

Probab=99.98  E-value=1.3e-31  Score=330.09  Aligned_cols=310  Identities=21%  Similarity=0.305  Sum_probs=233.3

Q ss_pred             cccchhhHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhh-cccC-CEEEEEEcCCCcCHHHHHHHH-
Q 038494          157 DFEAFDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVME-DKVF-DKVVMAEVTENPDVQKIQDKL-  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~-~~~f-~~~~wv~~s~~~~~~~l~~~i-  231 (1209)
                      ....||||+.++++|.+++.  .+..++|+|+||||+||||||++++++.+. ..+| +.++|++++.. +...+...+ 
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            35679999999999999997  356789999999999999999999987654 5668 58999999875 333343333 


Q ss_pred             --HHHhCCCC----CCCCChHHHHHHHHHHHhc-CCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          232 --ASDLDLNF----DLNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       232 --~~~l~~~~----~~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                        +..++...    ............+...+.+ ++++||||||||+...++.+       .        +|++||||||
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~--------~~~~ilvTsR  265 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------D--------SQCQILLTTR  265 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------C--------SSCEEEEEES
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------c--------CCCeEEEECC
Confidence              44554211    1223334555666666653 27899999999987665543       1        6899999999


Q ss_pred             chhhhcccCCcceEEE-cCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHH
Q 038494          305 SKHLLTNDMNSQKIFL-IEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDAL  383 (1209)
Q Consensus       305 ~~~v~~~~~~~~~~~~-l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~  383 (1209)
                      ...++....+....+. +++|+.+|+++||...++..  .....+.+.+|+++|+|+||||.++|++++... ..|..++
T Consensus       266 ~~~~~~~~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~--~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l  342 (591)
T 1z6t_A          266 DKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK--KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYL  342 (591)
T ss_dssp             CGGGGTTCCSCEEEEECCSSCCHHHHHHHHHHHHTSC--GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHH
T ss_pred             CcHHHHhcCCCceEeecCCCCCHHHHHHHHHHHhCCC--cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHH
Confidence            9987653222222222 36899999999999998642  233456889999999999999999999998763 4799999


Q ss_pred             HHHhcCCCcccc----CccccceeeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhccccccHHHHHHHH
Q 038494          384 TQLRNSNPREIH----GMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRV  459 (1209)
Q Consensus       384 ~~l~~~~~~~~~----~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~~  459 (1209)
                      +.+.......+.    .....+..++..||+.||++ .|.||+++|+||+++.|+.+.+..+|..      .    .+..
T Consensus       343 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~l~~la~f~~~~~i~~~~l~~l~~~------~----~~~~  411 (591)
T 1z6t_A          343 KQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDM------E----TEEV  411 (591)
T ss_dssp             HHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHHHHHGGGCCTTCCEEHHHHHHHHTC------C----HHHH
T ss_pred             HHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHHHHHccccCCCCccCHHHHHHHhcc------C----HHHH
Confidence            998866532221    12346788899999999998 8999999999999999999988887743      1    1234


Q ss_pred             HHHHHHHHhcccccCC--CCCCceEehhHHHHHHHHHhh
Q 038494          460 DALIDNLKASCLLLDG--DAEDEVKMHDVIHVVAVSIAS  496 (1209)
Q Consensus       460 ~~~~~~L~~~~ll~~~--~~~~~~~mHdlv~~~~~~~~~  496 (1209)
                      .+++++|++++|++..  +...+|.||+++|+|++....
T Consensus       412 ~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          412 EDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             HHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHTG
T ss_pred             HHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhhh
Confidence            5688999999999743  234579999999999998844

>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=99.97  E-value=7.1e-30  Score=321.26  Aligned_cols=580  Identities=16%  Similarity=0.140  Sum_probs=301.5

Q ss_pred             EEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCccc
Q 038494          524 ISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQL  602 (1209)
Q Consensus       524 l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~l  602 (1209)
                      +..++..+..+|.... +++++|++++|  .+..++...|.++++|++|++++|.++.+ |..++++++|++|++++|.+
T Consensus         9 ~~cs~~~L~~ip~~~~-~~l~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l   85 (680)
T 1ziw_A            9 ADCSHLKLTQVPDDLP-TNITVLNLTHN--QLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL   85 (680)
T ss_dssp             EECCSSCCSSCCSCSC-TTCSEEECCSS--CCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCC
T ss_pred             eECCCCCccccccccC-CCCcEEECCCC--CCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCcc
Confidence            3444444555554332 45666666555  24445555555566666666666655544 34455566666666666655


Q ss_pred             CCc--ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccC
Q 038494          603 EDV--AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       603 ~~l--~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      +.+  ..++++++|++|++++|.+..+| ..++++++|++|++++ +.+...++..++++++|++|+++++....     
T Consensus        86 ~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-----  159 (680)
T 1ziw_A           86 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH-NGLSSTKLGTQVQLENLQELLLSNNKIQA-----  159 (680)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCS-SCCSCCCCCSSSCCTTCCEEECCSSCCCC-----
T ss_pred             CccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCC-CcccccCchhhcccccCCEEEccCCcccc-----
Confidence            555  23556666666666665555554 3455566666666655 33444444445556666666655542110     


Q ss_pred             CCccchhhhCCCCCCCEEEeeccCCCCCCcc--cccCCCCeEEEEEcccCccc------cCCCCCccEEEEecCCCcchh
Q 038494          680 GSNASLAELKGLSKLTTLEIQVQDAQMLPQD--LVFVELPRYRICIGEAWGIW------RANSETSRLVQLHGLENVSTL  751 (1209)
Q Consensus       680 ~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~------~~~~~~~~~l~l~~l~~~~~~  751 (1209)
                      .... .-....+++|+.|+++.+....++..  ....+|+.+.+......+..      ......++.+.+....... .
T Consensus       160 ~~~~-~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~-~  237 (680)
T 1ziw_A          160 LKSE-ELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLST-T  237 (680)
T ss_dssp             BCHH-HHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCE-E
T ss_pred             cCHH-HhhccccccccEEECCCCcccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccc-c
Confidence            0000 00112334555555555544433322  12222222221100000000      0001122222222211000 0


Q ss_pred             hhHHHHHHH-hcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccc
Q 038494          752 LENYGMKML-LKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLIN  830 (1209)
Q Consensus       752 ~~~~~~~~~-~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~  830 (1209)
                       .+..+... .++|+.|++.++.... ..  ...++.+++|++|+++++......+     .....+++|+.|++.++..
T Consensus       238 -~~~~~~~l~~~~L~~L~Ls~n~l~~-~~--~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~l~~L~~L~L~~~~~  308 (680)
T 1ziw_A          238 -SNTTFLGLKWTNLTMLDLSYNNLNV-VG--NDSFAWLPQLEYFFLEYNNIQHLFS-----HSLHGLFNVRYLNLKRSFT  308 (680)
T ss_dssp             -CTTTTGGGGGSCCCEEECTTSCCCE-EC--TTTTTTCTTCCEEECCSCCBSEECT-----TTTTTCTTCCEEECTTCBC
T ss_pred             -ChhHhhccCcCCCCEEECCCCCcCc-cC--cccccCcccccEeeCCCCccCccCh-----hhhcCCCCccEEeccchhh
Confidence             00000000 1236777766543221 11  1124667888888888765322111     1224577888888876321


Q ss_pred             cchhcccccc-----cccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccc-cccccccCCCC-CCcccccc
Q 038494          831 LEAICHSQLR-----EDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNK-LEMTVGPDREK-PTTSLGFN  903 (1209)
Q Consensus       831 l~~~~~~~~~-----~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~-l~~~~~~~~~~-~~~~~~~~  903 (1209)
                      -..+....++     ..+.+++|++|++++| .++.++. ..+..+++|+.|++++|.. +..+....... ....+ ..
T Consensus       309 ~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L-~~  385 (680)
T 1ziw_A          309 KQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKS-NMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPL-HI  385 (680)
T ss_dssp             CC------CCEECTTTTTTCTTCCEEECCSC-CBCCCCT-TTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCC-CE
T ss_pred             hcccccccccccChhhcccCCCCCEEECCCC-ccCCCCh-hHhccccCCcEEECCCCchhhhhcchhhhcccccCcC-ce
Confidence            1111111111     1245788888888887 4444443 2456778888888887641 11111110000 00000 00


Q ss_pred             ccccCCCC----CCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCc
Q 038494          904 EIIADDDT----APKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSL  979 (1209)
Q Consensus       904 ~~~~~~~~----~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L  979 (1209)
                      ..+.....    ...+..+++|+.|++++|.....++.       .....+++|+.|++++|. +..+.... ...+|+|
T Consensus       386 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-------~~~~~l~~L~~L~Ls~n~-l~~~~~~~-~~~~~~L  456 (680)
T 1ziw_A          386 LNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTG-------QEWRGLENIFEIYLSYNK-YLQLTRNS-FALVPSL  456 (680)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSSCCEEECCS-------GGGTTCTTCCEEECCSCS-EEECCTTT-TTTCTTC
T ss_pred             EECCCCCCCeEChhhhhCCCCCCEEeCCCCcCccccCc-------ccccCcccccEEecCCCC-cceeChhh-hhcCccc
Confidence            00111111    12345667788888887754322211       123456778888888776 33332222 2357888


Q ss_pred             ceEeeccCCCccccccCccccCCCcccccccccccccccccccccchhhhhhhh--hhccccccceEEeeccCCceeecc
Q 038494          980 ERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYK--EMIGFRDIWYLQLSHFPRLKEIWH 1057 (1209)
Q Consensus       980 ~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~~L~~~~~ 1057 (1209)
                      +.|++++|.- ..+.      ..|....       .+++|+.|++++|......  .+.++++|+.|++++ +.++.++.
T Consensus       457 ~~L~l~~n~l-~~~~------~~p~~~~-------~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~-N~l~~~~~  521 (680)
T 1ziw_A          457 QRLMLRRVAL-KNVD------SSPSPFQ-------PLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQH-NNLARLWK  521 (680)
T ss_dssp             CEEECTTSCC-BCTT------CSSCTTT-------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCGGGGS
T ss_pred             ccchhccccc-cccc------cCCcccc-------cCCCCCEEECCCCCCCcCChhhhccccccCEEeCCC-CCccccch
Confidence            8888877642 1100      2232222       4889999999888654332  356789999999998 45665543


Q ss_pred             CC-----CCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCccccccccc
Q 038494         1058 GQ-----ALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNL 1132 (1209)
Q Consensus      1058 ~~-----~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L 1132 (1209)
                      ..     ...+..+++|+.|+++++ .+.. +|...+.++++|+.|+++++. ++.+++         ..+..+++|+.|
T Consensus       522 ~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~-i~~~~~~~l~~L~~L~Ls~N~-l~~l~~---------~~~~~l~~L~~L  589 (680)
T 1ziw_A          522 HANPGGPIYFLKGLSHLHILNLESN-GFDE-IPVEVFKDLFELKIIDLGLNN-LNTLPA---------SVFNNQVSLKSL  589 (680)
T ss_dssp             TTSTTSCCCTTTTCTTCCEEECCSS-CCCC-CCTTTTTTCTTCCEEECCSSC-CCCCCT---------TTTTTCTTCCEE
T ss_pred             hhccCCcchhhcCCCCCCEEECCCC-CCCC-CCHHHcccccCcceeECCCCC-CCcCCH---------hHhCCCCCCCEE
Confidence            32     112667899999999875 5554 677778899999999999887 776643         345578999999


Q ss_pred             ccccccccccccccCCCcc-CCCCccEEeeecCC
Q 038494         1133 RLIDLPKLKRFCNFTGNII-ELPELRYLTIENCP 1165 (1209)
Q Consensus      1133 ~i~~c~~l~~l~~~~~~l~-~l~~L~~L~i~~C~ 1165 (1209)
                      ++++ +.++.++.  ..+. .+++|+.|++.++|
T Consensus       590 ~L~~-N~l~~~~~--~~~~~~~~~L~~l~l~~N~  620 (680)
T 1ziw_A          590 NLQK-NLITSVEK--KVFGPAFRNLTELDMRFNP  620 (680)
T ss_dssp             ECTT-SCCCBCCH--HHHHHHHTTCSEEECTTCC
T ss_pred             ECCC-CcCCccCh--hHhcccccccCEEEccCCC
Confidence            9998 57877765  3444 68999999998744

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.97  E-value=1.4e-29  Score=314.19  Aligned_cols=525  Identities=14%  Similarity=0.117  Sum_probs=324.0

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  600 (1209)
                      +.+..++..+..+|.... +++++|++++|  .+..++...|.++++|++|++++|.++.+ |..|+++++|++|++++|
T Consensus        14 ~~~~c~~~~l~~ip~~~~-~~l~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n   90 (606)
T 3vq2_A           14 ITYQCMDQKLSKVPDDIP-SSTKNIDLSFN--PLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN   90 (606)
T ss_dssp             TEEECTTSCCSSCCTTSC-TTCCEEECTTS--CCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             CceEccCCCcccCCCCCC-CCcCEEECCCC--CcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC
Confidence            356666667777776543 77888888877  45666666677888888888888888766 456788888888888888


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcc--cCchhhcCCCCCcEEECCCCCCccc
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFPQWD  675 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~--~~~~~l~~L~~L~~L~l~~~~~~~~  675 (1209)
                      .++.+  ..++++++|++|++++|.+..+| ..++++++|++|++++| .+..  +| ..++++++|++|+++++...  
T Consensus        91 ~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~lp-~~~~~l~~L~~L~Ls~n~l~--  166 (606)
T 3vq2_A           91 PIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLP-AYFSNLTNLVHVDLSYNYIQ--  166 (606)
T ss_dssp             CCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSS-CCCCCCCC-GGGGTCTTCCEEECCSSCCC--
T ss_pred             cccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCC-cccceech-HhHhhcCCCCEEEccCCcce--
Confidence            87766  56788888888888888777665 56788888888888874 4443  33 34778888888888776421  


Q ss_pred             cccCCCccchhhhCCCCC-CCEEEeeccCCCCCCccc-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhh
Q 038494          676 KVEGGSNASLAELKGLSK-LTTLEIQVQDAQMLPQDL-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLE  753 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~-L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~  753 (1209)
                         ......+..+.+++. +..|+++.+.+..++... ...+|+.|.+.....                     ..  ..
T Consensus       167 ---~~~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~---------------------~~--~~  220 (606)
T 3vq2_A          167 ---TITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFN---------------------SS--NI  220 (606)
T ss_dssp             ---EECTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCS---------------------CH--HH
T ss_pred             ---ecChhhhhhhhccccccceeeccCCCcceeCcccccCceeeeeeccCCcc---------------------ch--hH
Confidence               112223444555544 557777777665554432 222344444321110                     00  01


Q ss_pred             HHHHHHHhcccceeeecc--ccccccc---c-ccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEeccc
Q 038494          754 NYGMKMLLKLTEDIRLEE--LTGVQNV---V-HELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYK  827 (1209)
Q Consensus       754 ~~~~~~~~~~L~~L~l~~--~~~~~~~---~-~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~  827 (1209)
                      .......++.++.+.+..  +.....+   . ..+..+..+ .++.+.+.....+.....     ....+++|+.|++.+
T Consensus       221 ~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~~~~l~~l-~l~~l~l~~~~~~~~~~~-----~~~~l~~L~~L~l~~  294 (606)
T 3vq2_A          221 MKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDV-TIDEFRLTYTNDFSDDIV-----KFHCLANVSAMSLAG  294 (606)
T ss_dssp             HHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGGGTTGGGS-EEEEEEECCCTTCCGGGG-----SCGGGTTCSEEEEES
T ss_pred             HHHHhccccccccccccccccccCCcccccChHHhhhhhhc-cHhheecccccccccccc-----ccccCCCCCEEEecC
Confidence            111111222333322211  1110000   0 001111111 344555544333321111     134577888888887


Q ss_pred             ccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCcccccccccc
Q 038494          828 LINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIA  907 (1209)
Q Consensus       828 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~  907 (1209)
                      + .++.++     ..+.+++|++|++++|.. ..+|.  .  .+++|+.|++++|..+...                   
T Consensus       295 ~-~~~~l~-----~l~~~~~L~~L~l~~n~l-~~lp~--~--~l~~L~~L~l~~n~~~~~~-------------------  344 (606)
T 3vq2_A          295 V-SIKYLE-----DVPKHFKWQSLSIIRCQL-KQFPT--L--DLPFLKSLTLTMNKGSISF-------------------  344 (606)
T ss_dssp             C-CCCCCC-----CCCTTCCCSEEEEESCCC-SSCCC--C--CCSSCCEEEEESCSSCEEC-------------------
T ss_pred             c-cchhhh-----hccccccCCEEEcccccC-ccccc--C--CCCccceeeccCCcCccch-------------------
Confidence            4 344443     224578888888888854 77764  2  6888888888887544332                   


Q ss_pred             CCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccC
Q 038494          908 DDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRC  987 (1209)
Q Consensus       908 ~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C  987 (1209)
                            .+..+++|+.|++++|..-...      ........+++|+.|++++|. +..++  .....+++|+.|++++|
T Consensus       345 ------~~~~l~~L~~L~ls~n~l~~~~------~~~~~~~~~~~L~~L~L~~n~-l~~~~--~~~~~l~~L~~L~l~~n  409 (606)
T 3vq2_A          345 ------KKVALPSLSYLDLSRNALSFSG------CCSYSDLGTNSLRHLDLSFNG-AIIMS--ANFMGLEELQHLDFQHS  409 (606)
T ss_dssp             ------CCCCCTTCCEEECCSSCEEEEE------ECCHHHHCCSCCCEEECCSCS-EEEEC--CCCTTCTTCCEEECTTS
T ss_pred             ------hhccCCCCCEEECcCCccCCCc------chhhhhccCCcccEeECCCCc-cccch--hhccCCCCCCeeECCCC
Confidence                  1245678888888887532110      001123467889999998876 44443  22346789999999887


Q ss_pred             CCccccccCccccCCCcccccccccccccccccccccchhhhhh--hhhhccccccceEEeeccCCcee-eccCCCCCcc
Q 038494          988 PNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKY--YKEMIGFRDIWYLQLSHFPRLKE-IWHGQALPVS 1064 (1209)
Q Consensus       988 ~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~~~~~~~~L~~L~l~~~~~L~~-~~~~~~~~~~ 1064 (1209)
                      .-..         ..|...+.      .+++|+.|++++|....  ...+..+++|++|+++++. +.. +..   ..+.
T Consensus       410 ~l~~---------~~~~~~~~------~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~---~~~~  470 (606)
T 3vq2_A          410 TLKR---------VTEFSAFL------SLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNS-FKDNTLS---NVFA  470 (606)
T ss_dssp             EEES---------TTTTTTTT------TCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCE-EGGGEEC---SCCT
T ss_pred             ccCC---------ccChhhhh------ccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCc-CCCcchH---Hhhc
Confidence            5332         11112222      57889999998887543  2345678999999998864 332 222   2367


Q ss_pred             cCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCccccccccccccccccccccc
Q 038494         1065 FFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFC 1144 (1209)
Q Consensus      1065 ~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~ 1144 (1209)
                      .+++|++|++++| .+....| ..+.++++|+.|++++|. ++.+.+         ..+..+++|+.|+++++ +++.+|
T Consensus       471 ~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~---------~~~~~l~~L~~L~l~~N-~l~~~p  537 (606)
T 3vq2_A          471 NTTNLTFLDLSKC-QLEQISW-GVFDTLHRLQLLNMSHNN-LLFLDS---------SHYNQLYSLSTLDCSFN-RIETSK  537 (606)
T ss_dssp             TCTTCCEEECTTS-CCCEECT-TTTTTCTTCCEEECCSSC-CSCEEG---------GGTTTCTTCCEEECTTS-CCCCEE
T ss_pred             cCCCCCEEECCCC-cCCccCh-hhhcccccCCEEECCCCc-CCCcCH---------HHccCCCcCCEEECCCC-cCcccC
Confidence            7899999999887 4554434 446889999999999997 655522         23457889999999984 688877


Q ss_pred             ccCCCccCCC-CccEEeeecCC
Q 038494         1145 NFTGNIIELP-ELRYLTIENCP 1165 (1209)
Q Consensus      1145 ~~~~~l~~l~-~L~~L~i~~C~ 1165 (1209)
                      .   .+..++ +|+.|++.++|
T Consensus       538 ~---~~~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          538 G---ILQHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             S---CGGGSCTTCCEEECCSCC
T ss_pred             H---hHhhhcccCcEEEccCCC
Confidence            6   477787 59999998854

>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=99.97  E-value=7.8e-30  Score=323.21  Aligned_cols=541  Identities=16%  Similarity=0.052  Sum_probs=261.8

Q ss_pred             CCCCccEEEeccCCCcccccCh-hhhcCCCCCcEEEecCcccc-cccccc-cCCCCCcEEeccCcccCCc--cc---ccC
Q 038494          539 ECPQLKLLLLLANGDSYLEISH-LFFEGTEDLKVLSLSGIHFS-SLSSSL-GHLINLQTLCLDWCQLEDV--AA---IGQ  610 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~-~~~~~l~~Lr~L~L~~~~i~-~lp~~i-~~l~~L~~L~l~~~~l~~l--~~---i~~  610 (1209)
                      .+++|++|++++|. ....++. ..++++++|++|++++|.+. .+|..+ .++++|++|++++|.+...  ..   +.+
T Consensus        98 ~l~~L~~L~Ls~n~-l~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~  176 (768)
T 3rgz_A           98 CSASLTSLDLSRNS-LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDG  176 (768)
T ss_dssp             CCTTCCEEECCSSE-EEEEGGGGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTTC
T ss_pred             cCCCCCEEECCCCc-CCCcCCChHHHhCCCCCCEEECcCCccCCcCCHHHhccCCCCCEEECCCCccCCcCChhhhhhcc
Confidence            45555555555543 1111222 13455555555555555554 233332 4555555555555555443  12   455


Q ss_pred             CCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCC
Q 038494          611 LKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKG  690 (1209)
Q Consensus       611 L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~  690 (1209)
                      +++|++|++++|.+....+ +.++++|++|++++| .+....+. ++++++|++|++++|...        ......+..
T Consensus       177 l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n-~l~~~~~~-l~~l~~L~~L~Ls~n~l~--------~~~~~~l~~  245 (768)
T 3rgz_A          177 CGELKHLAISGNKISGDVD-VSRCVNLEFLDVSSN-NFSTGIPF-LGDCSALQHLDISGNKLS--------GDFSRAIST  245 (768)
T ss_dssp             CTTCCEEECCSSEEESCCB-CTTCTTCCEEECCSS-CCCSCCCB-CTTCCSCCEEECCSSCCC--------SCHHHHTTT
T ss_pred             CCCCCEEECCCCcccccCC-cccCCcCCEEECcCC-cCCCCCcc-cccCCCCCEEECcCCcCC--------CcccHHHhc
Confidence            5555555555554443221 245555666666553 33333333 555666666665554311        112334555


Q ss_pred             CCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcc---cCccccCC-CCCccEEEEecCCCcchhhhHHHHHHHhcccce
Q 038494          691 LSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGE---AWGIWRAN-SETSRLVQLHGLENVSTLLENYGMKMLLKLTED  766 (1209)
Q Consensus       691 l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~---~~~~~~~~-~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~  766 (1209)
                      +++|+.|+++.+..........+.+|+.|.+..+.   ..+.+... ...++.+.+.........  + .....+++|+.
T Consensus       246 l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~--p-~~~~~l~~L~~  322 (768)
T 3rgz_A          246 CTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAV--P-PFFGSCSLLES  322 (768)
T ss_dssp             CSSCCEEECCSSCCEESCCCCCCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECC--C-GGGGGCTTCCE
T ss_pred             CCCCCEEECCCCcccCccCccccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCcc--c-hHHhcCCCccE
Confidence            66666666665554322222244555555543222   11212111 133444444332211100  0 00112345555


Q ss_pred             eeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCC-cccEEecccccccchhccccccccccc
Q 038494          767 IRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFP-LLESLSLYKLINLEAICHSQLREDQFF  845 (1209)
Q Consensus       767 L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~-~L~~L~l~~~~~l~~~~~~~~~~~~~l  845 (1209)
                      |++.++.....++..  .++.+++|++|+++++.....++..     ...++ +|+.|+++++ .+.......+.. ..+
T Consensus       323 L~L~~n~l~~~ip~~--~l~~l~~L~~L~Ls~n~l~~~~p~~-----l~~l~~~L~~L~Ls~N-~l~~~~~~~~~~-~~~  393 (768)
T 3rgz_A          323 LALSSNNFSGELPMD--TLLKMRGLKVLDLSFNEFSGELPES-----LTNLSASLLTLDLSSN-NFSGPILPNLCQ-NPK  393 (768)
T ss_dssp             EECCSSEEEEECCHH--HHTTCTTCCEEECCSSEEEECCCTT-----HHHHTTTCSEEECCSS-EEEEECCTTTTC-STT
T ss_pred             EECCCCcccCcCCHH--HHhcCCCCCEEeCcCCccCccccHH-----HHhhhcCCcEEEccCC-CcCCCcChhhhh-ccc
Confidence            555543322122211  0345666666666665422111111     11233 6666666663 222111110100 125


Q ss_pred             CCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEe
Q 038494          846 SNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLK  925 (1209)
Q Consensus       846 ~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~  925 (1209)
                      ++|++|++++|.-...+|.  .+.++++|+.|++++|.-....                       +..+..+++|+.|+
T Consensus       394 ~~L~~L~L~~n~l~~~~p~--~l~~l~~L~~L~Ls~N~l~~~~-----------------------p~~l~~l~~L~~L~  448 (768)
T 3rgz_A          394 NTLQELYLQNNGFTGKIPP--TLSNCSELVSLHLSFNYLSGTI-----------------------PSSLGSLSKLRDLK  448 (768)
T ss_dssp             CCCCEEECCSSEEEEECCG--GGGGCTTCCEEECCSSEEESCC-----------------------CGGGGGCTTCCEEE
T ss_pred             CCccEEECCCCccccccCH--HHhcCCCCCEEECcCCcccCcc-----------------------cHHHhcCCCCCEEE
Confidence            5677777766633223332  4456667777777665321111                       11234445566666


Q ss_pred             eccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcc
Q 038494          926 VSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCK 1005 (1209)
Q Consensus       926 l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~ 1005 (1209)
                      +++|.....++.        ....+++|+.|++++|.-...++..  ...+++|+.|++++|.-..         .+|..
T Consensus       449 L~~n~l~~~~p~--------~~~~l~~L~~L~L~~N~l~~~~p~~--l~~l~~L~~L~L~~N~l~~---------~~p~~  509 (768)
T 3rgz_A          449 LWLNMLEGEIPQ--------ELMYVKTLETLILDFNDLTGEIPSG--LSNCTNLNWISLSNNRLTG---------EIPKW  509 (768)
T ss_dssp             CCSSCCCSCCCG--------GGGGCTTCCEEECCSSCCCSCCCGG--GGGCTTCCEEECCSSCCCS---------CCCGG
T ss_pred             CCCCcccCcCCH--------HHcCCCCceEEEecCCcccCcCCHH--HhcCCCCCEEEccCCccCC---------cCChH
Confidence            665543222211        2234555666666555433222111  1235566666666654222         12222


Q ss_pred             cccccccccccccccccccchhhhh--hhhhhccccccceEEeeccCCceeeccC-------------------------
Q 038494         1006 VQVTEKEEGELHHWEGNNLNSIMQK--YYKEMIGFRDIWYLQLSHFPRLKEIWHG------------------------- 1058 (1209)
Q Consensus      1006 ~~~~~~~~~~l~~L~~L~l~~~~~~--~~~~~~~~~~L~~L~l~~~~~L~~~~~~------------------------- 1058 (1209)
                      ..       .+++|+.|++++|...  .+..+..+++|+.|++++++-...++..                         
T Consensus       510 ~~-------~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~  582 (768)
T 3rgz_A          510 IG-------RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDG  582 (768)
T ss_dssp             GG-------GCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCS
T ss_pred             Hh-------cCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhcccccccccccccc
Confidence            11       2555566666555432  2233445555666655553211111100                         


Q ss_pred             -----------------------------------------CCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcE
Q 038494         1059 -----------------------------------------QALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRR 1097 (1209)
Q Consensus      1059 -----------------------------------------~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~ 1097 (1209)
                                                               .+..+..+++|+.|+++++ ++...+|.. +.++++|+.
T Consensus       583 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N-~l~g~ip~~-l~~l~~L~~  660 (768)
T 3rgz_A          583 MKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYN-MLSGYIPKE-IGSMPYLFI  660 (768)
T ss_dssp             CCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSS-CCBSCCCGG-GGGCTTCCE
T ss_pred             ccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCC-cccccCCHH-HhccccCCE
Confidence                                                     0122455788999999875 555556765 688999999


Q ss_pred             EEEccCCchh-hhhhcccccccccCCCcccccccccccccccccc-cccccCCCccCCCCccEEeeecCCCccccc
Q 038494         1098 LEVRNCDSLE-EVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLK-RFCNFTGNIIELPELRYLTIENCPDMETFI 1171 (1209)
Q Consensus      1098 L~i~~c~~l~-~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~-~l~~~~~~l~~l~~L~~L~i~~C~~l~~l~ 1171 (1209)
                      |++++|. ++ .+|.          .+..+++|+.|+++++ ++. .+|   ..+..+++|+.|++++|+--..+|
T Consensus       661 L~Ls~N~-l~g~ip~----------~l~~L~~L~~LdLs~N-~l~g~ip---~~l~~l~~L~~L~ls~N~l~g~iP  721 (768)
T 3rgz_A          661 LNLGHND-ISGSIPD----------EVGDLRGLNILDLSSN-KLDGRIP---QAMSALTMLTEIDLSNNNLSGPIP  721 (768)
T ss_dssp             EECCSSC-CCSCCCG----------GGGGCTTCCEEECCSS-CCEECCC---GGGGGCCCCSEEECCSSEEEEECC
T ss_pred             EeCcCCc-cCCCCCh----------HHhCCCCCCEEECCCC-cccCcCC---hHHhCCCCCCEEECcCCcccccCC
Confidence            9999998 54 4432          3347889999999984 554 544   478899999999999875433444

>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=99.97  E-value=2e-29  Score=319.40  Aligned_cols=597  Identities=14%  Similarity=0.033  Sum_probs=304.7

Q ss_pred             cCCeEEEEccCCCCcc-CCC---cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-ccc---ccCC
Q 038494          518 QKGAIAISIPYGDIQE-LPE---RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSS---LGHL  589 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~-~~~---~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~---i~~l  589 (1209)
                      ..+++++.++++.+.. +|.   ...+++|++|++++|. ....++..++.++++|++|++++|.++.. |..   +.++
T Consensus        99 l~~L~~L~Ls~n~l~~~~~~~~~l~~l~~L~~L~Ls~n~-l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~l  177 (768)
T 3rgz_A           99 SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNT-LDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGC  177 (768)
T ss_dssp             CTTCCEEECCSSEEEEEGGGGGGGGGCTTCCEEECCSSE-EECCSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTTCC
T ss_pred             CCCCCEEECCCCcCCCcCCChHHHhCCCCCCEEECcCCc-cCCcCCHHHhccCCCCCEEECCCCccCCcCChhhhhhccC
Confidence            4567777777776652 333   2367788888887764 22334444446777888888888777644 333   6777


Q ss_pred             CCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          590 INLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       590 ~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      ++|++|++++|.+.....+.++++|++|++++|.+...++.++++++|++|++++| .+....+..++++++|++|++++
T Consensus       178 ~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~l~~L~~L~Ls~  256 (768)
T 3rgz_A          178 GELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGN-KLSGDFSRAISTCTELKLLNISS  256 (768)
T ss_dssp             TTCCEEECCSSEEESCCBCTTCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSS-CCCSCHHHHTTTCSSCCEEECCS
T ss_pred             CCCCEEECCCCcccccCCcccCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCC-cCCCcccHHHhcCCCCCEEECCC
Confidence            77788887777776664457777777777777777654444777777777777773 44443344577777777777776


Q ss_pred             CCCccccccCCCccchhhhCCCCCCCEEEeeccCCC-CCCccc-c-cCCCCeEEEEEcc---cCccccCCCCCccEEEEe
Q 038494          670 SFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ-MLPQDL-V-FVELPRYRICIGE---AWGIWRANSETSRLVQLH  743 (1209)
Q Consensus       670 ~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~-~~~~~~-~-~~~L~~L~l~~~~---~~~~~~~~~~~~~~l~l~  743 (1209)
                      |....     .    +... .+++|+.|+++.+... .+|... . ..+|+.|.+..+.   ..+.+......++.+.+.
T Consensus       257 n~l~~-----~----~~~~-~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~  326 (768)
T 3rgz_A          257 NQFVG-----P----IPPL-PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALS  326 (768)
T ss_dssp             SCCEE-----S----CCCC-CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECC
T ss_pred             CcccC-----c----cCcc-ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECC
Confidence            64210     0    0011 4556666666655543 333332 1 2555555554222   222233333444444444


Q ss_pred             cCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCcc-CCcEEEEecccCceeeeccCCccccccCCcccE
Q 038494          744 GLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFP-RLKHLWVERCSEILHIVGSVGRVHRKVFPLLES  822 (1209)
Q Consensus       744 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~-~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~  822 (1209)
                      ......  ..+......+++|+.|.+.++......+..   +..++ +|++|+++++.....++.   ......+++|+.
T Consensus       327 ~n~l~~--~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~---l~~l~~~L~~L~Ls~N~l~~~~~~---~~~~~~~~~L~~  398 (768)
T 3rgz_A          327 SNNFSG--ELPMDTLLKMRGLKVLDLSFNEFSGELPES---LTNLSASLLTLDLSSNNFSGPILP---NLCQNPKNTLQE  398 (768)
T ss_dssp             SSEEEE--ECCHHHHTTCTTCCEEECCSSEEEECCCTT---HHHHTTTCSEEECCSSEEEEECCT---TTTCSTTCCCCE
T ss_pred             CCcccC--cCCHHHHhcCCCCCEEeCcCCccCccccHH---HHhhhcCCcEEEccCCCcCCCcCh---hhhhcccCCccE
Confidence            322110  111111222345555555443221111111   12233 555555555432211110   001112344555


Q ss_pred             EecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCC-cccc
Q 038494          823 LSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPT-TSLG  901 (1209)
Q Consensus       823 L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~-~~~~  901 (1209)
                      |++.++. ++......   .+.+++|+.|++++|.-...+|.  .+..+++|+.|++++|.-...++......+. ..+.
T Consensus       399 L~L~~n~-l~~~~p~~---l~~l~~L~~L~Ls~N~l~~~~p~--~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~  472 (768)
T 3rgz_A          399 LYLQNNG-FTGKIPPT---LSNCSELVSLHLSFNYLSGTIPS--SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLI  472 (768)
T ss_dssp             EECCSSE-EEEECCGG---GGGCTTCCEEECCSSEEESCCCG--GGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEE
T ss_pred             EECCCCc-cccccCHH---HhcCCCCCEEECcCCcccCcccH--HHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEE
Confidence            5555432 22110000   12344555555555421112221  2344455555555444221111100000000 0000


Q ss_pred             ccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcce
Q 038494          902 FNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLER  981 (1209)
Q Consensus       902 ~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~  981 (1209)
                      ....-.....+..+..+++|+.|++++|.....++.        ....+++|+.|+|++|.-...++..  ...+++|+.
T Consensus       473 L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~--------~~~~l~~L~~L~L~~N~l~~~~p~~--l~~l~~L~~  542 (768)
T 3rgz_A          473 LDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK--------WIGRLENLAILKLSNNSFSGNIPAE--LGDCRSLIW  542 (768)
T ss_dssp             CCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCG--------GGGGCTTCCEEECCSSCCEEECCGG--GGGCTTCCE
T ss_pred             ecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCCh--------HHhcCCCCCEEECCCCcccCcCCHH--HcCCCCCCE
Confidence            000000011223356677888888888764433332        3345788888888887654444322  235788888


Q ss_pred             EeeccCCCccccccCccccC------CCccc-----------------------c-cccccccccccccccccchhh--h
Q 038494          982 VSMIRCPNMKTFSQGILSIP------KPCKV-----------------------Q-VTEKEEGELHHWEGNNLNSIM--Q 1029 (1209)
Q Consensus       982 L~i~~C~~L~~l~~~~~~~~------~p~~~-----------------------~-~~~~~~~~l~~L~~L~l~~~~--~ 1029 (1209)
                      |++++|+-...+|.......      +....                       . ........++.++.+++..+.  .
T Consensus       543 L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g  622 (768)
T 3rgz_A          543 LDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGG  622 (768)
T ss_dssp             EECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEE
T ss_pred             EECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecc
Confidence            88888764443333211100      00000                       0 000000111222222222111  1


Q ss_pred             hhhhhhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchh-h
Q 038494         1030 KYYKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLE-E 1108 (1209)
Q Consensus      1030 ~~~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~-~ 1108 (1209)
                      .....+..+++|+.|+++++ +++...+   ..++.+++|+.|+++++ .+...+|.. +.++++|+.|++++|. ++ .
T Consensus       623 ~~~~~~~~l~~L~~LdLs~N-~l~g~ip---~~l~~l~~L~~L~Ls~N-~l~g~ip~~-l~~L~~L~~LdLs~N~-l~g~  695 (768)
T 3rgz_A          623 HTSPTFDNNGSMMFLDMSYN-MLSGYIP---KEIGSMPYLFILNLGHN-DISGSIPDE-VGDLRGLNILDLSSNK-LDGR  695 (768)
T ss_dssp             ECCCSCSSSBCCCEEECCSS-CCBSCCC---GGGGGCTTCCEEECCSS-CCCSCCCGG-GGGCTTCCEEECCSSC-CEEC
T ss_pred             cCchhhhccccccEEECcCC-cccccCC---HHHhccccCCEEeCcCC-ccCCCCChH-HhCCCCCCEEECCCCc-ccCc
Confidence            11223445788999999985 4543222   33788999999999885 555556766 6889999999999998 54 3


Q ss_pred             hhhcccccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCCCccccc
Q 038494         1109 VLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCPDMETFI 1171 (1209)
Q Consensus      1109 l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~~l~~l~ 1171 (1209)
                      +|.          .+..+++|+.|++++++--..+|.    .+.+.++....+.++|.+=..|
T Consensus       696 ip~----------~l~~l~~L~~L~ls~N~l~g~iP~----~~~~~~~~~~~~~gN~~Lcg~~  744 (768)
T 3rgz_A          696 IPQ----------AMSALTMLTEIDLSNNNLSGPIPE----MGQFETFPPAKFLNNPGLCGYP  744 (768)
T ss_dssp             CCG----------GGGGCCCCSEEECCSSEEEEECCS----SSSGGGSCGGGGCSCTEEESTT
T ss_pred             CCh----------HHhCCCCCCEEECcCCcccccCCC----chhhccCCHHHhcCCchhcCCC
Confidence            332          334789999999999655556664    2344455555677777765444

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

Probab=99.97  E-value=6.5e-29  Score=308.13  Aligned_cols=530  Identities=16%  Similarity=0.109  Sum_probs=297.0

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcc
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~  601 (1209)
                      .+...+..+..+|... .+++++|++++|  .+..+++..|.++++|++|++++|.+..+ |..|+++++|++|++++|.
T Consensus        16 ~~~c~~~~l~~iP~~l-~~~l~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~   92 (606)
T 3t6q_A           16 TYNCENLGLNEIPGTL-PNSTECLEFSFN--VLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP   92 (606)
T ss_dssp             EEECTTSCCSSCCTTS-CTTCCEEECTTC--CCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC
T ss_pred             eEECCCCCcccCcCCC-CCcCcEEEccCC--ccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCc
Confidence            4455555566666543 246777777776  35556565667777777777777777654 5567777777777777777


Q ss_pred             cCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          602 LEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       602 l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +..+  ..++++++|++|++++|.++.+ |..++++++|++|++++ +.+..++...+..+++|++|+++++...     
T Consensus        93 l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~-----  166 (606)
T 3t6q_A           93 LIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS-NHISSIKLPKGFPTEKLKVLDFQNNAIH-----  166 (606)
T ss_dssp             CSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCS-SCCCCCCCCTTCCCTTCCEEECCSSCCC-----
T ss_pred             ccccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCC-CcccccCcccccCCcccCEEEcccCccc-----
Confidence            7665  4677777777777777777766 45577777777777777 4455543222445777777777665321     


Q ss_pred             CCCccchhhhCCCCCCC--EEEeeccCCCCCCcc-cccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHH
Q 038494          679 GGSNASLAELKGLSKLT--TLEIQVQDAQMLPQD-LVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENY  755 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~--~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~  755 (1209)
                         ......+..+++|+  .|+++.+....++.. .....|+.+.+                     .+..     ... 
T Consensus       167 ---~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l---------------------~~~~-----~~~-  216 (606)
T 3t6q_A          167 ---YLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNF---------------------GGTQ-----NLL-  216 (606)
T ss_dssp             ---EECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEEC---------------------TTCS-----CHH-
T ss_pred             ---ccChhhhhhhcccceeEEecCCCccCccChhHhhhcccccccc---------------------CCch-----hHH-
Confidence               11123455566666  566666655443322 11122222221                     1110     000 


Q ss_pred             HHHHHhcc--cceeeeccccccccccccccCCCCcc--CCcEEEEecccCceeeeccCCccccccCCcccEEeccccccc
Q 038494          756 GMKMLLKL--TEDIRLEELTGVQNVVHELDDGEGFP--RLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINL  831 (1209)
Q Consensus       756 ~~~~~~~~--L~~L~l~~~~~~~~~~~~l~~~~~l~--~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  831 (1209)
                      .....+.+  +..+.+..+.........-..+.++.  +|+.|+++++.. ..++.    .....+++|+.|+++++ .+
T Consensus       217 ~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l-~~~~~----~~~~~l~~L~~L~l~~n-~l  290 (606)
T 3t6q_A          217 VIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYF-FNISS----NTFHCFSGLQELDLTAT-HL  290 (606)
T ss_dssp             HHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCC-SSCCT----TTTTTCTTCSEEECTTS-CC
T ss_pred             HHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCcc-CccCH----HHhccccCCCEEeccCC-cc
Confidence            00111111  11122211111110000000011121  577777776642 21111    11344677888888774 45


Q ss_pred             chhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCC
Q 038494          832 EAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDT  911 (1209)
Q Consensus       832 ~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  911 (1209)
                      +.++..    .+.+++|++|++++| .++.+++ ..+..+++|+.|++++|.....++.                     
T Consensus       291 ~~lp~~----l~~l~~L~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~l~~n~~~~~~~~---------------------  343 (606)
T 3t6q_A          291 SELPSG----LVGLSTLKKLVLSAN-KFENLCQ-ISASNFPSLTHLSIKGNTKRLELGT---------------------  343 (606)
T ss_dssp             SCCCSS----CCSCTTCCEEECTTC-CCSBGGG-GCGGGCTTCSEEECCSCSSCCBCCS---------------------
T ss_pred             CCCChh----hcccccCCEEECccC-CcCcCch-hhhhccCcCCEEECCCCCcccccch---------------------
Confidence            543321    245777888888776 3444433 2456677888888877643212111                     


Q ss_pred             CCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCcc
Q 038494          912 APKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMK  991 (1209)
Q Consensus       912 ~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~  991 (1209)
                       ..+..+++|+.|++++|......      ........+++|+.|+++++. +..+.+.. ...+++|+.|++++|.--.
T Consensus       344 -~~~~~l~~L~~L~l~~n~l~~~~------~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~-~~~l~~L~~L~l~~n~l~~  414 (606)
T 3t6q_A          344 -GCLENLENLRELDLSHDDIETSD------CCNLQLRNLSHLQSLNLSYNE-PLSLKTEA-FKECPQLELLDLAFTRLKV  414 (606)
T ss_dssp             -STTTTCTTCCEEECCSSCCCEEE------ESTTTTTTCTTCCEEECCSCS-CEEECTTT-TTTCTTCSEEECTTCCEEC
T ss_pred             -hhhhccCcCCEEECCCCcccccc------CcchhcccCCCCCEEECCCCc-CCcCCHHH-hcCCccCCeEECCCCcCCC
Confidence             11345677788888776532211      001123457788888887765 23332222 2356788888888875322


Q ss_pred             ccccCccccCCCcccccccccccccccccccccchhhhhh--hhhhccccccceEEeeccCCceeeccCCCCCcccCCCc
Q 038494          992 TFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKY--YKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNL 1069 (1209)
Q Consensus       992 ~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L 1069 (1209)
                               ..|.....      .+++|+.|++++|....  ...+..+++|++|++++++ +..........+..+++|
T Consensus       415 ---------~~~~~~~~------~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~l~~L  478 (606)
T 3t6q_A          415 ---------KDAQSPFQ------NLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNH-FPKGNIQKTNSLQTLGRL  478 (606)
T ss_dssp             ---------CTTCCTTT------TCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCB-CGGGEECSSCGGGGCTTC
T ss_pred             ---------cccchhhh------CcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCC-CCccccccchhhccCCCc
Confidence                     11111111      47788888888876532  2234567888888888854 322111111236677889


Q ss_pred             cEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCCC
Q 038494         1070 ARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGN 1149 (1209)
Q Consensus      1070 ~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~ 1149 (1209)
                      +.|++++| .+....| ..+.++++|+.|++++|. ++.+++         ..+..+++| .|++++ +.++.++.  ..
T Consensus       479 ~~L~Ls~n-~l~~~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~---------~~l~~l~~L-~L~L~~-N~l~~~~~--~~  542 (606)
T 3t6q_A          479 EILVLSFC-DLSSIDQ-HAFTSLKMMNHVDLSHNR-LTSSSI---------EALSHLKGI-YLNLAS-NHISIILP--SL  542 (606)
T ss_dssp             CEEECTTS-CCCEECT-TTTTTCTTCCEEECCSSC-CCGGGG---------GGGTTCCSC-EEECCS-SCCCCCCG--GG
T ss_pred             cEEECCCC-ccCccCh-hhhccccCCCEEECCCCc-cCcCCh---------hHhCccccc-EEECcC-CcccccCH--hh
Confidence            99999886 4444334 346788899999999887 555432         233467778 888887 45666544  55


Q ss_pred             ccCCCCccEEeeecCC
Q 038494         1150 IIELPELRYLTIENCP 1165 (1209)
Q Consensus      1150 l~~l~~L~~L~i~~C~ 1165 (1209)
                      +..+++|+.|++.+||
T Consensus       543 ~~~l~~L~~L~l~~N~  558 (606)
T 3t6q_A          543 LPILSQQRTINLRQNP  558 (606)
T ss_dssp             HHHHHTSSEEECTTCC
T ss_pred             cccCCCCCEEeCCCCC
Confidence            6778888999988865

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.96  E-value=1.6e-28  Score=304.54  Aligned_cols=511  Identities=17%  Similarity=0.086  Sum_probs=344.1

Q ss_pred             hhcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L  592 (1209)
                      .++.+++++.++++.+..++.  ...+++|++|++++|  .+..+++..|.++++|++|++++|.++.+ |..|+++++|
T Consensus        29 ~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n--~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  106 (606)
T 3vq2_A           29 DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC--EIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSL  106 (606)
T ss_dssp             TSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC--CCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTC
T ss_pred             CCCCCcCEEECCCCCcCEeChhhccCCccCcEEeCCCC--cccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccC
Confidence            456899999999999988876  348999999999998  56777777789999999999999999987 7899999999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCC--ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCc----E
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIK--QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE----E  664 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~--~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~----~  664 (1209)
                      ++|++++|.+..+  ..++++++|++|++++|.+.  .+|..++++++|++|++++ +.++.+++..++.+.+|+    +
T Consensus       107 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~~l~~  185 (606)
T 3vq2_A          107 ENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSY-NYIQTITVNDLQFLRENPQVNLS  185 (606)
T ss_dssp             CEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCS-SCCCEECTTTTHHHHHCTTCCCE
T ss_pred             CEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccC-CcceecChhhhhhhhccccccce
Confidence            9999999999877  57999999999999999988  5799999999999999999 577777766677666665    7


Q ss_pred             EECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCC--CCcc-cccCCCCeEEEEEcccCccccCCCCCccEEE
Q 038494          665 LYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQM--LPQD-LVFVELPRYRICIGEAWGIWRANSETSRLVQ  741 (1209)
Q Consensus       665 L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~--~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~  741 (1209)
                      |+++++...         ......-...+|+.|+++++....  .+.. .....++.+.+..+......     .     
T Consensus       186 L~l~~n~l~---------~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~-----~-----  246 (606)
T 3vq2_A          186 LDMSLNPID---------FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDER-----N-----  246 (606)
T ss_dssp             EECTTCCCC---------EECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSC-----C-----
T ss_pred             eeccCCCcc---------eeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCC-----c-----
Confidence            998876432         111122223378999998876531  1111 14445555555433211100     0     


Q ss_pred             EecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCccc
Q 038494          742 LHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLE  821 (1209)
Q Consensus       742 l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~  821 (1209)
                      +....    .....++..  -.++.+.+........   ..+.+..+++|+.|++.++.. ..++      ....+++|+
T Consensus       247 l~~~~----~~~~~~l~~--l~l~~l~l~~~~~~~~---~~~~~~~l~~L~~L~l~~~~~-~~l~------~l~~~~~L~  310 (606)
T 3vq2_A          247 LEIFE----PSIMEGLCD--VTIDEFRLTYTNDFSD---DIVKFHCLANVSAMSLAGVSI-KYLE------DVPKHFKWQ  310 (606)
T ss_dssp             CSCCC----GGGGTTGGG--SEEEEEEECCCTTCCG---GGGSCGGGTTCSEEEEESCCC-CCCC------CCCTTCCCS
T ss_pred             ccccC----hHHhhhhhh--ccHhheeccccccccc---cccccccCCCCCEEEecCccc-hhhh------hccccccCC
Confidence            00000    000000000  0233333322222222   222256788888888888763 2221      234577888


Q ss_pred             EEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCcccc
Q 038494          822 SLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLG  901 (1209)
Q Consensus       822 ~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~  901 (1209)
                      .|++.+|.- ..++     .. .+++|++|++++|..+...+    +..+++|+.|++++|. +.....           
T Consensus       311 ~L~l~~n~l-~~lp-----~~-~l~~L~~L~l~~n~~~~~~~----~~~l~~L~~L~ls~n~-l~~~~~-----------  367 (606)
T 3vq2_A          311 SLSIIRCQL-KQFP-----TL-DLPFLKSLTLTMNKGSISFK----KVALPSLSYLDLSRNA-LSFSGC-----------  367 (606)
T ss_dssp             EEEEESCCC-SSCC-----CC-CCSSCCEEEEESCSSCEECC----CCCCTTCCEEECCSSC-EEEEEE-----------
T ss_pred             EEEcccccC-cccc-----cC-CCCccceeeccCCcCccchh----hccCCCCCEEECcCCc-cCCCcc-----------
Confidence            888888643 4433     22 58889999998886665542    2467888888888763 222110           


Q ss_pred             ccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcce
Q 038494          902 FNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLER  981 (1209)
Q Consensus       902 ~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~  981 (1209)
                               ....+..+++|+.|++++|.. ..++        .....+++|+.|+++++.-.... .......+++|+.
T Consensus       368 ---------~~~~~~~~~~L~~L~L~~n~l-~~~~--------~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~~l~~L~~  428 (606)
T 3vq2_A          368 ---------CSYSDLGTNSLRHLDLSFNGA-IIMS--------ANFMGLEELQHLDFQHSTLKRVT-EFSAFLSLEKLLY  428 (606)
T ss_dssp             ---------CCHHHHCCSCCCEEECCSCSE-EEEC--------CCCTTCTTCCEEECTTSEEESTT-TTTTTTTCTTCCE
T ss_pred             ---------hhhhhccCCcccEeECCCCcc-ccch--------hhccCCCCCCeeECCCCccCCcc-ChhhhhccccCCE
Confidence                     001224567888888888762 2222        13456788999999887643332 2222346889999


Q ss_pred             EeeccCCCccccccCccccCCCcccccccccccccccccccccchhhhhh---hhhhccccccceEEeeccCCceeeccC
Q 038494          982 VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKY---YKEMIGFRDIWYLQLSHFPRLKEIWHG 1058 (1209)
Q Consensus       982 L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~---~~~~~~~~~L~~L~l~~~~~L~~~~~~ 1058 (1209)
                      |++++|.-..         ..|....       .+++|++|++++|....   ...+..+++|+.|++++| .++.+...
T Consensus       429 L~l~~n~l~~---------~~~~~~~-------~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~  491 (606)
T 3vq2_A          429 LDISYTNTKI---------DFDGIFL-------GLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKC-QLEQISWG  491 (606)
T ss_dssp             EECTTSCCEE---------CCTTTTT-------TCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTT
T ss_pred             EECcCCCCCc---------cchhhhc-------CCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCC-cCCccChh
Confidence            9999986433         1222221       47899999999886543   234567899999999996 56555433


Q ss_pred             CCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccc-cccccccccc
Q 038494         1059 QALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFP-KLSNLRLIDL 1137 (1209)
Q Consensus      1059 ~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~-~L~~L~i~~c 1137 (1209)
                         .+..+++|++|++++| .+....|. .+.++++|+.|++++|. ++.+|..          +..++ +|+.|++.++
T Consensus       492 ---~~~~l~~L~~L~Ls~N-~l~~~~~~-~~~~l~~L~~L~l~~N~-l~~~p~~----------~~~l~~~L~~l~l~~N  555 (606)
T 3vq2_A          492 ---VFDTLHRLQLLNMSHN-NLLFLDSS-HYNQLYSLSTLDCSFNR-IETSKGI----------LQHFPKSLAFFNLTNN  555 (606)
T ss_dssp             ---TTTTCTTCCEEECCSS-CCSCEEGG-GTTTCTTCCEEECTTSC-CCCEESC----------GGGSCTTCCEEECCSC
T ss_pred             ---hhcccccCCEEECCCC-cCCCcCHH-HccCCCcCCEEECCCCc-CcccCHh----------HhhhcccCcEEEccCC
Confidence               3677899999999987 55554454 46889999999999998 8777542          23555 6999999985


Q ss_pred             cc
Q 038494         1138 PK 1139 (1209)
Q Consensus      1138 ~~ 1139 (1209)
                      |-
T Consensus       556 ~~  557 (606)
T 3vq2_A          556 SV  557 (606)
T ss_dssp             CC
T ss_pred             Cc
Confidence            53

>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=99.96  E-value=4.6e-28  Score=300.46  Aligned_cols=514  Identities=14%  Similarity=0.115  Sum_probs=349.8

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L  592 (1209)
                      .++..++++.++++.+..++..  ..+++|++|++++|  .+..+.+..|.++++|++|++++|.+..+ |..++++++|
T Consensus        30 ~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  107 (606)
T 3t6q_A           30 TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC--QIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKAL  107 (606)
T ss_dssp             TSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTC--CCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTC
T ss_pred             CCCCcCcEEEccCCccCcCChhHhccCccceEEECCCC--ccceeChhhccCccccCeeeCCCCcccccChhhhcccccc
Confidence            4567899999999999988542  48999999999998  46667777789999999999999999865 6789999999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCc--EEEC
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE--ELYM  667 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~--~L~l  667 (1209)
                      ++|++++|.++.+  ..++++++|++|++++|.+..++ +.+..+++|++|++++ +.+..+++..++.+++|+  +|++
T Consensus       108 ~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~l~L~l  186 (606)
T 3t6q_A          108 KHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQN-NAIHYLSKEDMSSLQQATNLSLNL  186 (606)
T ss_dssp             CEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCS-SCCCEECHHHHHTTTTCCSEEEEC
T ss_pred             cEeeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEccc-CcccccChhhhhhhcccceeEEec
Confidence            9999999999987  77999999999999999998763 3455599999999999 678888777799999999  8888


Q ss_pred             CCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCccc-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCC
Q 038494          668 GDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDL-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLE  746 (1209)
Q Consensus       668 ~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~  746 (1209)
                      +++....         .....-...+|+.|+++++..  .+... ...++.-..+..+.                   +.
T Consensus       187 ~~n~l~~---------~~~~~~~~~~L~~L~l~~~~~--~~~~~~~l~~~~l~~l~~~~-------------------~~  236 (606)
T 3t6q_A          187 NGNDIAG---------IEPGAFDSAVFQSLNFGGTQN--LLVIFKGLKNSTIQSLWLGT-------------------FE  236 (606)
T ss_dssp             TTCCCCE---------ECTTTTTTCEEEEEECTTCSC--HHHHHHHTTTCEEEEEECCC-------------------CT
T ss_pred             CCCccCc---------cChhHhhhccccccccCCchh--HHHHhhhccccchhheechh-------------------hc
Confidence            8764321         111222335788888876541  11111 12222211221111                   00


Q ss_pred             CcchhhhHHHHHHHh--cccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEe
Q 038494          747 NVSTLLENYGMKMLL--KLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLS  824 (1209)
Q Consensus       747 ~~~~~~~~~~~~~~~--~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~  824 (1209)
                      ..............+  ..++.+.+.+... ..+...  .++.+++|++|+++++. +..++.     ....+++|+.|+
T Consensus       237 ~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l-~~~~~~--~~~~l~~L~~L~l~~n~-l~~lp~-----~l~~l~~L~~L~  307 (606)
T 3t6q_A          237 DMDDEDISPAVFEGLCEMSVESINLQKHYF-FNISSN--TFHCFSGLQELDLTATH-LSELPS-----GLVGLSTLKKLV  307 (606)
T ss_dssp             TSCCCCCCGGGGGGGGGSEEEEEECTTCCC-SSCCTT--TTTTCTTCSEEECTTSC-CSCCCS-----SCCSCTTCCEEE
T ss_pred             cccccccChhHhchhhcCceeEEEeecCcc-CccCHH--HhccccCCCEEeccCCc-cCCCCh-----hhcccccCCEEE
Confidence            000000000000001  1466666655422 222211  15778999999999985 333332     234589999999


Q ss_pred             cccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccc
Q 038494          825 LYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNE  904 (1209)
Q Consensus       825 l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~  904 (1209)
                      ++++ .++.+....+   ..+++|+.|++++|.....++. ..+..+++|+.|++++|.- .....              
T Consensus       308 l~~n-~l~~~~~~~~---~~l~~L~~L~l~~n~~~~~~~~-~~~~~l~~L~~L~l~~n~l-~~~~~--------------  367 (606)
T 3t6q_A          308 LSAN-KFENLCQISA---SNFPSLTHLSIKGNTKRLELGT-GCLENLENLRELDLSHDDI-ETSDC--------------  367 (606)
T ss_dssp             CTTC-CCSBGGGGCG---GGCTTCSEEECCSCSSCCBCCS-STTTTCTTCCEEECCSSCC-CEEEE--------------
T ss_pred             CccC-CcCcCchhhh---hccCcCCEEECCCCCcccccch-hhhhccCcCCEEECCCCcc-ccccC--------------
Confidence            9985 4555433222   4589999999999865545554 3467899999999998743 22210              


Q ss_pred             cccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEee
Q 038494          905 IIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSM  984 (1209)
Q Consensus       905 ~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i  984 (1209)
                            ....+..+++|+.|++++|......+        .....+++|+.|+++++.-.... .......+++|+.|++
T Consensus       368 ------~~~~~~~l~~L~~L~l~~n~l~~~~~--------~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~~l~~L~~L~l  432 (606)
T 3t6q_A          368 ------CNLQLRNLSHLQSLNLSYNEPLSLKT--------EAFKECPQLELLDLAFTRLKVKD-AQSPFQNLHLLKVLNL  432 (606)
T ss_dssp             ------STTTTTTCTTCCEEECCSCSCEEECT--------TTTTTCTTCSEEECTTCCEECCT-TCCTTTTCTTCCEEEC
T ss_pred             ------cchhcccCCCCCEEECCCCcCCcCCH--------HHhcCCccCCeEECCCCcCCCcc-cchhhhCcccCCEEEC
Confidence                  01224667899999999986432221        13346789999999988643332 2222346899999999


Q ss_pred             ccCCCccccccCccccCCCcccccccccccccccccccccchhhhhhh-----hhhccccccceEEeeccCCceeeccCC
Q 038494          985 IRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYY-----KEMIGFRDIWYLQLSHFPRLKEIWHGQ 1059 (1209)
Q Consensus       985 ~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-----~~~~~~~~L~~L~l~~~~~L~~~~~~~ 1059 (1209)
                      ++|. +..         .+.....      .+++|++|++++|.....     ..+..+++|+.|++++| .++.+... 
T Consensus       433 ~~n~-l~~---------~~~~~~~------~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~-  494 (606)
T 3t6q_A          433 SHSL-LDI---------SSEQLFD------GLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC-DLSSIDQH-  494 (606)
T ss_dssp             TTCC-CBT---------TCTTTTT------TCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTS-CCCEECTT-
T ss_pred             CCCc-cCC---------cCHHHHh------CCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCC-ccCccChh-
Confidence            9985 331         2222222      488999999999875321     33567899999999995 56655433 


Q ss_pred             CCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccc
Q 038494         1060 ALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPK 1139 (1209)
Q Consensus      1060 ~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~ 1139 (1209)
                        .+..+++|+.|+++++ .+....| ..+.++++| .|++++|. ++.+++         ..+..+++|+.|+++++|-
T Consensus       495 --~~~~l~~L~~L~Ls~N-~l~~~~~-~~l~~l~~L-~L~L~~N~-l~~~~~---------~~~~~l~~L~~L~l~~N~~  559 (606)
T 3t6q_A          495 --AFTSLKMMNHVDLSHN-RLTSSSI-EALSHLKGI-YLNLASNH-ISIILP---------SLLPILSQQRTINLRQNPL  559 (606)
T ss_dssp             --TTTTCTTCCEEECCSS-CCCGGGG-GGGTTCCSC-EEECCSSC-CCCCCG---------GGHHHHHTSSEEECTTCCE
T ss_pred             --hhccccCCCEEECCCC-ccCcCCh-hHhCccccc-EEECcCCc-ccccCH---------hhcccCCCCCEEeCCCCCc
Confidence              3677899999999886 4555444 447889999 99999998 665543         2234678999999998663

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

Probab=99.96  E-value=3.1e-28  Score=306.23  Aligned_cols=542  Identities=15%  Similarity=0.074  Sum_probs=338.5

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L  592 (1209)
                      ..+.+++++.++++.+..++..  ..+++|++|++++|  .+..+++..|.++++|++|++++|.++.+|. .|+++++|
T Consensus        22 ~~~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L   99 (680)
T 1ziw_A           22 DLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN--TISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNL   99 (680)
T ss_dssp             CSCTTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSS--CCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             ccCCCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCC--ccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCC
Confidence            3467899999999999888763  47899999999988  4666777778999999999999999999987 69999999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhc--CCCCCcEEEC
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVIS--KFSRLEELYM  667 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~--~L~~L~~L~l  667 (1209)
                      ++|++++|.+..+  ..++++++|++|++++|.+... |..++++++|++|++++ +.++..++..+.  .+++|++|++
T Consensus       100 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~~~~~~L~~L~L  178 (680)
T 1ziw_A          100 TELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSN-NKIQALKSEELDIFANSSLKKLEL  178 (680)
T ss_dssp             SEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCS-SCCCCBCHHHHGGGTTCEESEEEC
T ss_pred             CEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccC-CcccccCHHHhhccccccccEEEC
Confidence            9999999999887  5799999999999999988865 55688999999999999 567777665554  5689999999


Q ss_pred             CCCCCccccccCCCccchhhhC------------------------CCCCCCEEEeeccCCCCCCcc-c---ccCCCCeE
Q 038494          668 GDSFPQWDKVEGGSNASLAELK------------------------GLSKLTTLEIQVQDAQMLPQD-L---VFVELPRY  719 (1209)
Q Consensus       668 ~~~~~~~~~~~~~~~~~l~~L~------------------------~l~~L~~L~l~~~~~~~~~~~-~---~~~~L~~L  719 (1209)
                      +++....     .....+..+.                        ..++|+.|+++.+........ .   ...+|+.|
T Consensus       179 ~~n~l~~-----~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L  253 (680)
T 1ziw_A          179 SSNQIKE-----FSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTML  253 (680)
T ss_dssp             TTCCCCC-----BCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEE
T ss_pred             CCCcccc-----cChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEE
Confidence            8874321     1111111111                        125677777776655433322 1   12346666


Q ss_pred             EEEEcccC---ccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccc-----cccc-cccCCCCccC
Q 038494          720 RICIGEAW---GIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQ-----NVVH-ELDDGEGFPR  790 (1209)
Q Consensus       720 ~l~~~~~~---~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-----~~~~-~l~~~~~l~~  790 (1209)
                      .+..+...   +.+......++.+.+.......   ........+++|+.|.+.+.....     .++. .-..++.+++
T Consensus       254 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~---~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~  330 (680)
T 1ziw_A          254 DLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQH---LFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKC  330 (680)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEECCSCCBSE---ECTTTTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTT
T ss_pred             ECCCCCcCccCcccccCcccccEeeCCCCccCc---cChhhhcCCCCccEEeccchhhhcccccccccccChhhcccCCC
Confidence            65432211   1122223334444443322111   000001112344555443311100     0000 0001345566


Q ss_pred             CcEEEEecccCceeeeccCCccccccCCcccEEeccccc-ccchhcccccccccccCCccEEEEecCCCccccccHHHHh
Q 038494          791 LKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLI-NLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIAR  869 (1209)
Q Consensus       791 L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  869 (1209)
                      |++|+++++.-.. +.    ......+++|+.|+++++. .+..+....+.. ...++|+.|++++| .++.+++ ..+.
T Consensus       331 L~~L~l~~n~l~~-~~----~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~-~~~~~L~~L~L~~n-~l~~~~~-~~~~  402 (680)
T 1ziw_A          331 LEHLNMEDNDIPG-IK----SNMFTGLINLKYLSLSNSFTSLRTLTNETFVS-LAHSPLHILNLTKN-KISKIES-DAFS  402 (680)
T ss_dssp             CCEEECCSCCBCC-CC----TTTTTTCTTCCEEECTTCBSCCCEECTTTTGG-GTTSCCCEEECTTS-CCCEECT-TTTT
T ss_pred             CCEEECCCCccCC-CC----hhHhccccCCcEEECCCCchhhhhcchhhhcc-cccCcCceEECCCC-CCCeECh-hhhh
Confidence            6666666554211 10    0012345666666666532 111111111111 11246667776666 3444433 2345


Q ss_pred             hcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccc
Q 038494          870 NLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIA  949 (1209)
Q Consensus       870 ~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~  949 (1209)
                      .+++|+.|+++++.-...++.                      ..+..+++|+.|++++|......+.        ....
T Consensus       403 ~l~~L~~L~L~~N~l~~~~~~----------------------~~~~~l~~L~~L~Ls~n~l~~~~~~--------~~~~  452 (680)
T 1ziw_A          403 WLGHLEVLDLGLNEIGQELTG----------------------QEWRGLENIFEIYLSYNKYLQLTRN--------SFAL  452 (680)
T ss_dssp             TCTTCCEEECCSSCCEEECCS----------------------GGGTTCTTCCEEECCSCSEEECCTT--------TTTT
T ss_pred             CCCCCCEEeCCCCcCccccCc----------------------ccccCcccccEEecCCCCcceeChh--------hhhc
Confidence            667777777776532211111                      2245678999999999874322111        2345


Q ss_pred             cccchhhhhccCCc--ccccccccccccCCCcceEeeccCCCccccccCccccCCCcccccccccccccccccccccchh
Q 038494          950 FSELKVLILNYLSR--LTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSI 1027 (1209)
Q Consensus       950 ~~~L~~L~L~~~~~--L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~ 1027 (1209)
                      +|+|+.|++.++.-  +...  ......+++|+.|++++|. ++.         +|...+.      .+++|+.|++++|
T Consensus       453 ~~~L~~L~l~~n~l~~~~~~--p~~~~~l~~L~~L~Ls~N~-l~~---------i~~~~~~------~l~~L~~L~Ls~N  514 (680)
T 1ziw_A          453 VPSLQRLMLRRVALKNVDSS--PSPFQPLRNLTILDLSNNN-IAN---------INDDMLE------GLEKLEILDLQHN  514 (680)
T ss_dssp             CTTCCEEECTTSCCBCTTCS--SCTTTTCTTCCEEECCSSC-CCC---------CCTTTTT------TCTTCCEEECCSS
T ss_pred             CcccccchhccccccccccC--CcccccCCCCCEEECCCCC-CCc---------CChhhhc------cccccCEEeCCCC
Confidence            78999999988763  2222  1223468999999999974 553         3333222      5889999999998


Q ss_pred             hhhhhh----------hhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcE
Q 038494         1028 MQKYYK----------EMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRR 1097 (1209)
Q Consensus      1028 ~~~~~~----------~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~ 1097 (1209)
                      ......          .+..+++|+.|++++ +.++.++...   +..+++|+.|++++ +++.. +|...+.++++|+.
T Consensus       515 ~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~-N~l~~i~~~~---~~~l~~L~~L~Ls~-N~l~~-l~~~~~~~l~~L~~  588 (680)
T 1ziw_A          515 NLARLWKHANPGGPIYFLKGLSHLHILNLES-NGFDEIPVEV---FKDLFELKIIDLGL-NNLNT-LPASVFNNQVSLKS  588 (680)
T ss_dssp             CCGGGGSTTSTTSCCCTTTTCTTCCEEECCS-SCCCCCCTTT---TTTCTTCCEEECCS-SCCCC-CCTTTTTTCTTCCE
T ss_pred             CccccchhhccCCcchhhcCCCCCCEEECCC-CCCCCCCHHH---cccccCcceeECCC-CCCCc-CCHhHhCCCCCCCE
Confidence            654321          145789999999998 4677665432   67789999999976 46665 57777889999999


Q ss_pred             EEEccCCchhhhhhcccccccccCCCc-cccccccccccccccc
Q 038494         1098 LEVRNCDSLEEVLRLEELNADKEHIGP-MFPKLSNLRLIDLPKL 1140 (1209)
Q Consensus      1098 L~i~~c~~l~~l~~~~~~~~~~~~~~~-~l~~L~~L~i~~c~~l 1140 (1209)
                      |++++|. ++.+++..         +. .+++|+.|++.++|-.
T Consensus       589 L~L~~N~-l~~~~~~~---------~~~~~~~L~~l~l~~N~~~  622 (680)
T 1ziw_A          589 LNLQKNL-ITSVEKKV---------FGPAFRNLTELDMRFNPFD  622 (680)
T ss_dssp             EECTTSC-CCBCCHHH---------HHHHHTTCSEEECTTCCCC
T ss_pred             EECCCCc-CCccChhH---------hcccccccCEEEccCCCcc
Confidence            9999997 77664321         22 5789999999986533

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

Probab=99.95  E-value=3.9e-27  Score=290.21  Aligned_cols=133  Identities=20%  Similarity=0.274  Sum_probs=85.5

Q ss_pred             ccccccccccchhhhhhh---hhhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhh
Q 038494         1015 ELHHWEGNNLNSIMQKYY---KEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRC 1091 (1209)
Q Consensus      1015 ~l~~L~~L~l~~~~~~~~---~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~ 1091 (1209)
                      .+++|+.|++++|.....   ..+..+++|++|++++|. +.....   ..+..+++|++|++++|.-....+|. .+..
T Consensus       394 ~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~---~~~~~l~~L~~L~l~~n~l~~~~~p~-~~~~  468 (570)
T 2z63_A          394 GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFN---GIFNGLSSLEVLKMAGNSFQENFLPD-IFTE  468 (570)
T ss_dssp             TCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSC-CEECCT---TTTTTCTTCCEEECTTCEEGGGEECS-CCTT
T ss_pred             ccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCc-ccccch---hhhhcCCcCcEEECcCCcCccccchh-hhhc
Confidence            355666666666543322   123466777888887754 333222   23566788888888887533223453 3577


Q ss_pred             hccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCC
Q 038494         1092 LNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCP 1165 (1209)
Q Consensus      1092 l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~ 1165 (1209)
                      +++|+.|++++|. ++.++         ...+..+++|+.|++++| +++.++.  +.+..+++|+.|++++++
T Consensus       469 l~~L~~L~l~~n~-l~~~~---------~~~~~~l~~L~~L~l~~n-~l~~~~~--~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          469 LRNLTFLDLSQCQ-LEQLS---------PTAFNSLSSLQVLNMASN-QLKSVPD--GIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             CTTCCEEECTTSC-CCEEC---------TTTTTTCTTCCEEECCSS-CCSCCCT--TTTTTCTTCCEEECCSSC
T ss_pred             ccCCCEEECCCCc-cccCC---------hhhhhcccCCCEEeCCCC-cCCCCCH--HHhhcccCCcEEEecCCc
Confidence            8888888888887 55442         223456788888888884 6776654  567788888888888854

>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=99.95  E-value=5.5e-26  Score=278.30  Aligned_cols=173  Identities=20%  Similarity=0.233  Sum_probs=134.9

Q ss_pred             EEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCccc
Q 038494          524 ISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQL  602 (1209)
Q Consensus       524 l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l  602 (1209)
                      ....++.+..+|... .+++++|++++|  .+..++...|.++++|++|++++|.++.++ ..++.+++|++|++++|.+
T Consensus        10 c~~~~~~l~~ip~~~-~~~L~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l   86 (549)
T 2z81_A           10 CDGRSRSFTSIPSGL-TAAMKSLDLSFN--KITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHL   86 (549)
T ss_dssp             EECTTSCCSSCCSCC-CTTCCEEECCSS--CCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCCCccccccccC-CCCccEEECcCC--ccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCcc
Confidence            455667777888754 378999999988  466666666789999999999999998765 5789999999999999998


Q ss_pred             CCc--ccccCCCCCCEEEccCCCCCc--cchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          603 EDV--AAIGQLKKLEILSFRYSDIKQ--LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       603 ~~l--~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +.+  ..++++++|++|++++|.++.  .|..++++++|++|++++|..+..+++..++++++|++|+++++...     
T Consensus        87 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~-----  161 (549)
T 2z81_A           87 SSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLR-----  161 (549)
T ss_dssp             CSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC-----
T ss_pred             CccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCccc-----
Confidence            887  448999999999999998884  46778899999999999866577777666888999999998776421     


Q ss_pred             CCCccchhhhCCCCCCCEEEeeccCCCCC
Q 038494          679 GGSNASLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                         ......+..+++|+.|+++.+....+
T Consensus       162 ---~~~~~~l~~l~~L~~L~l~~n~~~~~  187 (549)
T 2z81_A          162 ---NYQSQSLKSIRDIHHLTLHLSESAFL  187 (549)
T ss_dssp             ---EECTTTTTTCSEEEEEEEECSBSTTH
T ss_pred             ---ccChhhhhccccCceEecccCccccc
Confidence               11234567777888888877655433

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

Probab=99.94  E-value=8.6e-26  Score=289.26  Aligned_cols=152  Identities=21%  Similarity=0.315  Sum_probs=88.9

Q ss_pred             hcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~  593 (1209)
                      .+.+++++.+++|.+..++.  ...+++|++|++++|. ....+++..|.++++|++|+|++|.+..+ |..|+.+++|+
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~-~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~  100 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQY-TPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLF  100 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTC-CCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCC
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCC-CccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccC
Confidence            45566666666666655432  2256666666666653 34445455556666666666666666644 55666666666


Q ss_pred             EEeccCcccCC--ccc--ccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccCCCCCcccCchhhcCC--CCCcEE
Q 038494          594 TLCLDWCQLED--VAA--IGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIAPNVISKF--SRLEEL  665 (1209)
Q Consensus       594 ~L~l~~~~l~~--l~~--i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L--~~L~~L  665 (1209)
                      +|++++|.+..  +..  ++++++|++|++++|.+..++  ..++++++|++|++++ +.+....+..+..+  ++|+.|
T Consensus       101 ~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~-N~i~~~~~~~l~~l~~~~L~~L  179 (844)
T 3j0a_A          101 ELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSS-NQIFLVCEHELEPLQGKTLSFF  179 (844)
T ss_dssp             CEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEES-SCCCCCCSGGGHHHHHCSSCCC
T ss_pred             EeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCC-CcCCeeCHHHcccccCCccceE
Confidence            66666666654  222  666666666666666665442  3466666666666666 34444433445444  566666


Q ss_pred             ECCCC
Q 038494          666 YMGDS  670 (1209)
Q Consensus       666 ~l~~~  670 (1209)
                      +++.+
T Consensus       180 ~L~~n  184 (844)
T 3j0a_A          180 SLAAN  184 (844)
T ss_dssp             EECCS
T ss_pred             ECCCC
Confidence            66554

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

Probab=99.94  E-value=5.8e-25  Score=281.55  Aligned_cols=510  Identities=15%  Similarity=0.099  Sum_probs=337.9

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcc-cccc-cccccCCCCCcEEeccC
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIH-FSSL-SSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~-i~~l-p~~i~~l~~L~~L~l~~  599 (1209)
                      +.+..+++.+..+|.  -.+++++|++++|  .+..+....|.++++|++|+|++|. +..+ |..|+++++|++|+|++
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--VLNTTERLLLSFN--YIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGS   82 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESC--CCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTT
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCC--cCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCC
Confidence            455666778888887  5689999999998  4667777778999999999999994 4466 67899999999999999


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCc-cchh--ccCCCCCCEEeccCCCCCccc-CchhhcCCCCCcEEECCCCCCc
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQ-LPLE--IGQLAQLQLLDLSNCSSLVVI-APNVISKFSRLEELYMGDSFPQ  673 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~-lp~~--i~~L~~L~~L~l~~~~~l~~~-~~~~l~~L~~L~~L~l~~~~~~  673 (1209)
                      |.+..+  ..++++++|++|++++|.+.. +|..  ++++++|++|++++| .+... ++..++++++|++|+++++...
T Consensus        83 N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A           83 SKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN-QIRSLYLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             CCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESC-CCCCCCCCGGGGTCSSCCEEEEESSCCC
T ss_pred             CcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCC-cccccccchhHhhCCCCCEEECCCCcCC
Confidence            999887  689999999999999998885 5555  899999999999994 55554 3345899999999999886431


Q ss_pred             cccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhh
Q 038494          674 WDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLE  753 (1209)
Q Consensus       674 ~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~  753 (1209)
                           ......+..+.. ++|+.|+++.+........ .+..                             +.+.  .  
T Consensus       162 -----~~~~~~l~~l~~-~~L~~L~L~~n~l~~~~~~-~~~~-----------------------------~~~~--~--  201 (844)
T 3j0a_A          162 -----LVCEHELEPLQG-KTLSFFSLAANSLYSRVSV-DWGK-----------------------------CMNP--F--  201 (844)
T ss_dssp             -----CCCSGGGHHHHH-CSSCCCEECCSBSCCCCCC-CCCS-----------------------------SSCT--T--
T ss_pred             -----eeCHHHcccccC-CccceEECCCCcccccccc-chhh-----------------------------cCCc--c--
Confidence                 111222333322 6888888887755321110 0000                             0000  0  


Q ss_pred             HHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeee-----cc-CCccccccCCcccEEeccc
Q 038494          754 NYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIV-----GS-VGRVHRKVFPLLESLSLYK  827 (1209)
Q Consensus       754 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~-----~~-~~~~~~~~~~~L~~L~l~~  827 (1209)
                            ....|+.|++.+..........+...-...+++.|.+..+..-..+.     .. ......-..++|+.|++++
T Consensus       202 ------~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~  275 (844)
T 3j0a_A          202 ------RNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSH  275 (844)
T ss_dssp             ------TTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTT
T ss_pred             ------ccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCC
Confidence                  00124555554432222222222212234578888876322111000     00 0001111247899999988


Q ss_pred             ccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCcccccccccc
Q 038494          828 LINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIA  907 (1209)
Q Consensus       828 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~  907 (1209)
                      + .+.......+   +.+++|+.|+++++ .++.+++ ..+..+++|+.|++++|. +..+..                 
T Consensus       276 n-~l~~~~~~~~---~~l~~L~~L~L~~n-~i~~~~~-~~~~~l~~L~~L~Ls~N~-l~~~~~-----------------  331 (844)
T 3j0a_A          276 G-FVFSLNSRVF---ETLKDLKVLNLAYN-KINKIAD-EAFYGLDNLQVLNLSYNL-LGELYS-----------------  331 (844)
T ss_dssp             C-CCCEECSCCS---SSCCCCCEEEEESC-CCCEECT-TTTTTCSSCCEEEEESCC-CSCCCS-----------------
T ss_pred             C-cccccChhhh---hcCCCCCEEECCCC-cCCCCCh-HHhcCCCCCCEEECCCCC-CCccCH-----------------
Confidence            4 4554432222   45899999999997 5555544 346789999999999873 322211                 


Q ss_pred             CCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccC
Q 038494          908 DDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRC  987 (1209)
Q Consensus       908 ~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C  987 (1209)
                           ..+..+++|+.|++++|. +..++.       .....+++|+.|+++++. ++.++      .+++|+.|.+++|
T Consensus       332 -----~~~~~l~~L~~L~L~~N~-i~~~~~-------~~~~~l~~L~~L~Ls~N~-l~~i~------~~~~L~~L~l~~N  391 (844)
T 3j0a_A          332 -----SNFYGLPKVAYIDLQKNH-IAIIQD-------QTFKFLEKLQTLDLRDNA-LTTIH------FIPSIPDIFLSGN  391 (844)
T ss_dssp             -----CSCSSCTTCCEEECCSCC-CCCCCS-------SCSCSCCCCCEEEEETCC-SCCCS------SCCSCSEEEEESC
T ss_pred             -----HHhcCCCCCCEEECCCCC-CCccCh-------hhhcCCCCCCEEECCCCC-CCccc------CCCCcchhccCCC
Confidence                 234567899999999984 332221       123568999999999875 44331      2789999999987


Q ss_pred             CCccccccCccccCCCcccccccccccccccccccccchhhhhhh---hhhccccccceEEeeccCCceeeccCCCCCcc
Q 038494          988 PNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYY---KEMIGFRDIWYLQLSHFPRLKEIWHGQALPVS 1064 (1209)
Q Consensus       988 ~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~---~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~ 1064 (1209)
                      + +..+         |.          ...+++.|++++|.....   ..+..+++|+.|+++++ .++.+...  ..+.
T Consensus       392 ~-l~~l---------~~----------~~~~l~~L~ls~N~l~~l~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~--~~~~  448 (844)
T 3j0a_A          392 K-LVTL---------PK----------INLTANLIHLSENRLENLDILYFLLRVPHLQILILNQN-RFSSCSGD--QTPS  448 (844)
T ss_dssp             C-CCCC---------CC----------CCTTCCEEECCSCCCCSSTTHHHHTTCTTCCEEEEESC-CCCCCCSS--SSSC
T ss_pred             C-cccc---------cc----------cccccceeecccCccccCchhhhhhcCCccceeeCCCC-cccccccc--cccc
Confidence            4 4422         22          245677888887754322   22447899999999994 55544322  1244


Q ss_pred             cCCCccEEEEecCCCCccc----cchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCccccccccccccccccc
Q 038494         1065 FFNNLARLVVDDCTNMSSA----IPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKL 1140 (1209)
Q Consensus      1065 ~l~~L~~L~i~~c~~l~~~----~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l 1140 (1209)
                      .+++|+.|+++++. +...    .+...+.++++|+.|++++|. ++.+++         ..+..+++|+.|++++ +++
T Consensus       449 ~~~~L~~L~Ls~N~-l~~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~---------~~~~~l~~L~~L~Ls~-N~l  516 (844)
T 3j0a_A          449 ENPSLEQLFLGENM-LQLAWETELCWDVFEGLSHLQVLYLNHNY-LNSLPP---------GVFSHLTALRGLSLNS-NRL  516 (844)
T ss_dssp             SCTTCCBCEEESCC-CSSSCCSCCCSSCSSCBCCEECCCCCHHH-HTTCCT---------TSSSSCCSCSEEEEES-CCC
T ss_pred             cCCccccccCCCCc-cccccccccchhhhcCcccccEEECCCCc-ccccCh---------hHccchhhhheeECCC-CCC
Confidence            57899999999864 3211    222447789999999999997 776643         3456789999999998 688


Q ss_pred             ccccccCCCccCCCCccEEeeecCC
Q 038494         1141 KRFCNFTGNIIELPELRYLTIENCP 1165 (1209)
Q Consensus      1141 ~~l~~~~~~l~~l~~L~~L~i~~C~ 1165 (1209)
                      +.++.  +.+.  ++|+.|+++++.
T Consensus       517 ~~l~~--~~~~--~~L~~L~Ls~N~  537 (844)
T 3j0a_A          517 TVLSH--NDLP--ANLEILDISRNQ  537 (844)
T ss_dssp             SSCCC--CCCC--SCCCEEEEEEEC
T ss_pred             CccCh--hhhh--ccccEEECCCCc
Confidence            88875  3333  899999998863

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.93  E-value=1.6e-24  Score=270.87  Aligned_cols=526  Identities=16%  Similarity=0.136  Sum_probs=314.7

Q ss_pred             cCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc
Q 038494          527 PYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV  605 (1209)
Q Consensus       527 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l  605 (1209)
                      ++.++..+|.... +++++|++++|  .+..+++..|.++++|++|+|++|.|+.+|+ +|.++++|++|+|++|.++.+
T Consensus        39 ~~~~l~~vP~~lp-~~~~~LdLs~N--~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l  115 (635)
T 4g8a_A           39 MELNFYKIPDNLP-FSTKNLDLSFN--PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL  115 (635)
T ss_dssp             TTSCCSSCCSSSC-TTCCEEECTTS--CCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEE
T ss_pred             CCCCcCccCCCCC-cCCCEEEeeCC--CCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCC
Confidence            3445667776542 57999999998  5788888888999999999999999998865 689999999999999999888


Q ss_pred             --ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCccc-CchhhcCCCCCcEEECCCCCCccccccCCC
Q 038494          606 --AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVI-APNVISKFSRLEELYMGDSFPQWDKVEGGS  681 (1209)
Q Consensus       606 --~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~-~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~  681 (1209)
                        ..|.++.+|++|++++|.++.+|.. ++++++|++|++++ +.+..+ .+..++.+++|++|+++++...     ...
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 ALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSNKIQ-----SIY  189 (635)
T ss_dssp             CGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS-SCCCCCCCCGGGGGCTTCCEEECCSSCCC-----EEC
T ss_pred             CHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeecccc-CccccCCCchhhccchhhhhhcccCcccc-----ccc
Confidence              4689999999999999999988764 89999999999998 455543 2445788999999999887432     112


Q ss_pred             ccchhhhCCCCC-CCEEEeeccCCCCCCccc-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHH
Q 038494          682 NASLAELKGLSK-LTTLEIQVQDAQMLPQDL-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKM  759 (1209)
Q Consensus       682 ~~~l~~L~~l~~-L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~  759 (1209)
                      ...+..+..+.. +..++++.+.+..++... ....+..+.+                       ..+............
T Consensus       190 ~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~~~~~~~l~l-----------------------~~n~~~~~~~~~~~~  246 (635)
T 4g8a_A          190 CTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTL-----------------------RNNFDSLNVMKTCIQ  246 (635)
T ss_dssp             GGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEE-----------------------ESCCSSHHHHHHHHH
T ss_pred             cccccchhhhhhhhhhhhcccCcccccCcccccchhhhhhhh-----------------------hcccccccccchhhc
Confidence            233445555543 336666666554433221 1111111111                       111111122222222


Q ss_pred             Hhcccceeeecc--cccccccc-ccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcc
Q 038494          760 LLKLTEDIRLEE--LTGVQNVV-HELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICH  836 (1209)
Q Consensus       760 ~~~~L~~L~l~~--~~~~~~~~-~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  836 (1209)
                      .+..++...+..  ........ .....+..+..+..+.+.............  .....+.+++.+.+.+.. +..+. 
T Consensus       247 ~l~~l~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~--~~~~~~~~l~~l~~~~~~-~~~~~-  322 (635)
T 4g8a_A          247 GLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGII--DLFNCLTNVSSFSLVSVT-IERVK-  322 (635)
T ss_dssp             TTTTCEEEEEEEECCTTSCCCSCCCTTTTGGGGGSEEEEEEEECCCSCEEECT--TTTGGGTTCSEEEEESCE-EEECG-
T ss_pred             CCcccccccccccccccccccccccccccccccchhhhhhhhhhhcccccchh--hhhhhhcccccccccccc-ccccc-
Confidence            223333222211  11100000 011112334445554444332111110000  122335566666666532 22211 


Q ss_pred             cccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCcc
Q 038494          837 SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVG  916 (1209)
Q Consensus       837 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  916 (1209)
                          ....+..|+.|++.+|. +..++.    ..++.|+.+.+..+..-..                         ....
T Consensus       323 ----~~~~~~~L~~L~l~~~~-~~~~~~----~~l~~L~~l~l~~n~~~~~-------------------------~~~~  368 (635)
T 4g8a_A          323 ----DFSYNFGWQHLELVNCK-FGQFPT----LKLKSLKRLTFTSNKGGNA-------------------------FSEV  368 (635)
T ss_dssp             ----GGGSCCCCSEEEEESCE-ESSCCC----CBCTTCCEEEEESCCSCCB-------------------------CCCC
T ss_pred             ----ccccchhhhhhhccccc-ccCcCc----ccchhhhhcccccccCCCC-------------------------cccc
Confidence                11345677888887763 333332    2356777777765421110                         1123


Q ss_pred             CccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccC
Q 038494          917 IPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQG  996 (1209)
Q Consensus       917 ~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~  996 (1209)
                      .+++|+.|+++.+......      .........++|+.|++..+.....   ......+++|+.+++..+.....    
T Consensus       369 ~l~~L~~L~ls~n~l~~~~------~~~~~~~~~~~L~~L~~~~~~~~~~---~~~~~~l~~L~~l~l~~~~~~~~----  435 (635)
T 4g8a_A          369 DLPSLEFLDLSRNGLSFKG------CCSQSDFGTISLKYLDLSFNGVITM---SSNFLGLEQLEHLDFQHSNLKQM----  435 (635)
T ss_dssp             BCTTCCEEECCSSCCBEEE------ECCHHHHSCSCCCEEECCSCSEEEE---CSCCTTCTTCCEEECTTSEEEST----
T ss_pred             cccccccchhhcccccccc------ccccchhhhhhhhhhhccccccccc---cccccccccccchhhhhcccccc----
Confidence            4577888888775432110      0001112356677777666543221   11223578888888877654431    


Q ss_pred             ccccCCCcccccccccccccccccccccchhhhhh--hhhhccccccceEEeeccCCceeeccCCCCCcccCCCccEEEE
Q 038494          997 ILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKY--YKEMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVV 1074 (1209)
Q Consensus       997 ~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i 1074 (1209)
                           .+...+.      .+.+++.++++.|....  ......+++|+.|+++++.....+...   .+..+++|++|++
T Consensus       436 -----~~~~~~~------~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~---~~~~l~~L~~L~L  501 (635)
T 4g8a_A          436 -----SEFSVFL------SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD---IFTELRNLTFLDL  501 (635)
T ss_dssp             -----TSSCTTT------TCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECS---CCTTCTTCCEEEC
T ss_pred             -----ccccccc------cccccccccccccccccccccccccchhhhhhhhhhcccccccCch---hhhhccccCEEEC
Confidence                 1222222      47778888887765432  234457788999999887655544332   3667889999999


Q ss_pred             ecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCCCccCC-
Q 038494         1075 DDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIEL- 1153 (1209)
Q Consensus      1075 ~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l- 1153 (1209)
                      ++| .+... +...+.++++|++|++++|. |+.+++         ..+..+++|+.|++++ ++++.++.  +.+..+ 
T Consensus       502 s~N-~L~~l-~~~~f~~l~~L~~L~Ls~N~-l~~l~~---------~~~~~l~~L~~L~Ls~-N~l~~~~~--~~l~~l~  566 (635)
T 4g8a_A          502 SQC-QLEQL-SPTAFNSLSSLQVLNMSHNN-FFSLDT---------FPYKCLNSLQVLDYSL-NHIMTSKK--QELQHFP  566 (635)
T ss_dssp             TTS-CCCEE-CTTTTTTCTTCCEEECTTSC-CCBCCC---------GGGTTCTTCCEEECTT-SCCCBCCS--SCTTCCC
T ss_pred             CCC-ccCCc-ChHHHcCCCCCCEEECCCCc-CCCCCh---------hHHhCCCCCCEEECCC-CcCCCCCH--HHHHhhh
Confidence            886 56654 44457889999999999987 766532         3345788999999998 67877754  667777 


Q ss_pred             CCccEEeeecC
Q 038494         1154 PELRYLTIENC 1164 (1209)
Q Consensus      1154 ~~L~~L~i~~C 1164 (1209)
                      ++|+.|+++++
T Consensus       567 ~~L~~L~L~~N  577 (635)
T 4g8a_A          567 SSLAFLNLTQN  577 (635)
T ss_dssp             TTCCEEECTTC
T ss_pred             CcCCEEEeeCC
Confidence            57999999773

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.93  E-value=1.1e-24  Score=264.44  Aligned_cols=141  Identities=18%  Similarity=0.227  Sum_probs=94.2

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  600 (1209)
                      +++.++++.+..+|.... +++++|++++|  .+..++...|.++++|++|++++|.++.+ |..++++++|++|++++|
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N   79 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQN--YISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN   79 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSS--CCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSS
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCC--cccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCC
Confidence            567777777777776544 77777777776  35556656667777777777777777765 557777777777777777


Q ss_pred             ccCCcccccCCCCCCEEEccCCCCCc--cchhccCCCCCCEEeccCCCCCcccCchhhcCCCCC--cEEECCCC
Q 038494          601 QLEDVAAIGQLKKLEILSFRYSDIKQ--LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRL--EELYMGDS  670 (1209)
Q Consensus       601 ~l~~l~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L--~~L~l~~~  670 (1209)
                      .++.++.. .+++|++|++++|.++.  +|..++++++|++|++++ +.+..   ..+..+++|  ++|+++++
T Consensus        80 ~l~~lp~~-~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~-n~l~~---~~~~~l~~L~L~~L~l~~n  148 (520)
T 2z7x_B           80 KLVKISCH-PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLST-THLEK---SSVLPIAHLNISKVLLVLG  148 (520)
T ss_dssp             CCCEEECC-CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEE-SSCCG---GGGGGGTTSCEEEEEEEEC
T ss_pred             ceeecCcc-ccCCccEEeccCCccccccchhhhccCCcceEEEecC-cccch---hhccccccceeeEEEeecc
Confidence            77766333 67777777777777664  456677777777777776 33433   224445555  66665544

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

Probab=99.93  E-value=1.7e-24  Score=266.63  Aligned_cols=481  Identities=17%  Similarity=0.174  Sum_probs=254.6

Q ss_pred             EccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCcccC
Q 038494          525 SIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQLE  603 (1209)
Q Consensus       525 ~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l~  603 (1209)
                      .-.+..+..+|... .+++++|++++|  .+..++...|.++++|++|++++|.++.++ ..|+++++|++|++++|.++
T Consensus        13 ~c~~~~l~~ip~~l-~~~l~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~   89 (570)
T 2z63_A           13 QCMELNFYKIPDNL-PFSTKNLDLSFN--PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ   89 (570)
T ss_dssp             ECCSSCCSSCCSSS-CSSCCEEECCSC--CCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC
T ss_pred             EeCCCCccccCCCc-cccccEEEccCC--ccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCC
Confidence            33344455555433 246777777666  345555555667777777777777776654 35677777777777777766


Q ss_pred             Cc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccC-chhhcCCCCCcEEECCCCCCccccccC
Q 038494          604 DV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIA-PNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       604 ~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~-~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      .+  ..++++++|++|++++|.++.+|. .++++++|++|++++ +.+..+. +..++++++|++|+++++....     
T Consensus        90 ~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~-n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~-----  163 (570)
T 2z63_A           90 SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSNKIQS-----  163 (570)
T ss_dssp             EECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCS-SCCCCCCCCGGGGGCTTCCEEECTTSCCCE-----
T ss_pred             ccCHhhhcCccccccccccccccccCCCccccccccccEEecCC-CccceecChhhhcccCCCCEEeCcCCccce-----
Confidence            65  456777777777777777766654 466777777777776 3444321 2336677777777776653210     


Q ss_pred             CCccchhhhCCCCCC-CEEEeeccCCCCCCcc-cccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHH
Q 038494          680 GSNASLAELKGLSKL-TTLEIQVQDAQMLPQD-LVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGM  757 (1209)
Q Consensus       680 ~~~~~l~~L~~l~~L-~~L~l~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~  757 (1209)
                      .....+..+.+++.+ ..|+++.+....++.. ....+|+.|.+.                     ...  ....   .+
T Consensus       164 ~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~~~~~~~L~~L~l~---------------------~n~--~~~~---~~  217 (570)
T 2z63_A          164 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLR---------------------NNF--DSLN---VM  217 (570)
T ss_dssp             ECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEE---------------------SCC--SCTT---HH
T ss_pred             ecHHHccchhccchhhhhcccCCCCceecCHHHhccCcceeEecc---------------------ccc--cccc---ch
Confidence            111223333333222 4666666554433322 111122222221                     100  0000   01


Q ss_pred             HHHhcccceeeeccccccccccccccCCCCccCCcEEEEec--cc---CceeeeccCCccccccCC--cccEEecccccc
Q 038494          758 KMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVER--CS---EILHIVGSVGRVHRKVFP--LLESLSLYKLIN  830 (1209)
Q Consensus       758 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~--~~---~l~~~~~~~~~~~~~~~~--~L~~L~l~~~~~  830 (1209)
                      ...+.                        .+++++.+.+..  ..   .+..+...    ....++  .++.+.+.++..
T Consensus       218 ~~~~~------------------------~l~~l~~~~l~~~~~~~~~~l~~~~~~----~~~~l~~l~l~~l~l~~~~~  269 (570)
T 2z63_A          218 KTCIQ------------------------GLAGLEVHRLVLGEFRNEGNLEKFDKS----ALEGLCNLTIEEFRLAYLDY  269 (570)
T ss_dssp             HHHHH------------------------TTTTCEEEEEEEEECCCCSSCEECCTT----TTGGGGGSEEEEEEEEETTE
T ss_pred             hhhhc------------------------CccccceeeeccccccCchhhhhcchh----hhccccccchhhhhhhcchh
Confidence            11111                        122222222211  00   00000000    000011  123333333222


Q ss_pred             cchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCC
Q 038494          831 LEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDD  910 (1209)
Q Consensus       831 l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~  910 (1209)
                      +.......   .+.+++|+.|++++| .++.+|.  .+..+ +|++|++++|                            
T Consensus       270 ~~~~~~~~---~~~l~~L~~L~l~~~-~l~~l~~--~~~~~-~L~~L~l~~n----------------------------  314 (570)
T 2z63_A          270 YLDDIIDL---FNCLTNVSSFSLVSV-TIERVKD--FSYNF-GWQHLELVNC----------------------------  314 (570)
T ss_dssp             EESCSTTT---TGGGTTCSEEEEESC-EECSCCB--CCSCC-CCSEEEEESC----------------------------
T ss_pred             hhhhchhh---hcCcCcccEEEecCc-cchhhhh--hhccC-CccEEeeccC----------------------------
Confidence            21111111   123455555555554 2333333  12233 4555555544                            


Q ss_pred             CCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCCCc
Q 038494          911 TAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNM  990 (1209)
Q Consensus       911 ~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L  990 (1209)
                                         ..- .++          ...+++|+.|+++++......+.    ..+++|+.|++++|. +
T Consensus       315 -------------------~~~-~l~----------~~~l~~L~~L~l~~n~~~~~~~~----~~~~~L~~L~l~~n~-l  359 (570)
T 2z63_A          315 -------------------KFG-QFP----------TLKLKSLKRLTFTSNKGGNAFSE----VDLPSLEFLDLSRNG-L  359 (570)
T ss_dssp             -------------------BCS-SCC----------BCBCSSCCEEEEESCBSCCBCCC----CBCTTCCEEECCSSC-C
T ss_pred             -------------------ccc-ccC----------cccccccCEEeCcCCcccccccc----ccCCCCCEEeCcCCc-c
Confidence                               211 111          12356666666666553333222    246788888887764 2


Q ss_pred             cccccCccccCCCcccccccccccccccccccccchhhhhhhh-hhccccccceEEeeccCCceeeccCCCCCcccCCCc
Q 038494          991 KTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYK-EMIGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNL 1069 (1209)
Q Consensus       991 ~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L 1069 (1209)
                      ....      ..|..       ...+++|++|++++|...... .+..+++|++|+++++ .+......  ..+..+++|
T Consensus       360 ~~~~------~~~~~-------~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~--~~~~~l~~L  423 (570)
T 2z63_A          360 SFKG------CCSQS-------DFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEF--SVFLSLRNL  423 (570)
T ss_dssp             BEEE------EEEHH-------HHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTS-EEESCTTS--CTTTTCTTC
T ss_pred             Cccc------ccccc-------ccccCccCEEECCCCccccccccccccCCCCEEEccCC-ccccccch--hhhhcCCCC
Confidence            2110      00111       114678888888877643222 2567899999999985 44443221  236778999


Q ss_pred             cEEEEecCCCCccccchhhHhhhccCcEEEEccCCchh--hhhhcccccccccCCCcccccccccccccccccccccccC
Q 038494         1070 ARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLE--EVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFT 1147 (1209)
Q Consensus      1070 ~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~--~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~ 1147 (1209)
                      ++|++++|. +....| ..+.++++|+.|++++|. ++  .+|          ..+..+++|+.|++++| .++.++.  
T Consensus       424 ~~L~l~~n~-l~~~~~-~~~~~l~~L~~L~l~~n~-l~~~~~p----------~~~~~l~~L~~L~l~~n-~l~~~~~--  487 (570)
T 2z63_A          424 IYLDISHTH-TRVAFN-GIFNGLSSLEVLKMAGNS-FQENFLP----------DIFTELRNLTFLDLSQC-QLEQLSP--  487 (570)
T ss_dssp             CEEECTTSC-CEECCT-TTTTTCTTCCEEECTTCE-EGGGEEC----------SCCTTCTTCCEEECTTS-CCCEECT--
T ss_pred             CEEeCcCCc-ccccch-hhhhcCCcCcEEECcCCc-Cccccch----------hhhhcccCCCEEECCCC-ccccCCh--
Confidence            999999875 443334 457889999999999998 54  232          34457899999999995 5666632  


Q ss_pred             CCccCCCCccEEeeecCCCccccc
Q 038494         1148 GNIIELPELRYLTIENCPDMETFI 1171 (1209)
Q Consensus      1148 ~~l~~l~~L~~L~i~~C~~l~~l~ 1171 (1209)
                      ..+..+++|++|++++| +++.+|
T Consensus       488 ~~~~~l~~L~~L~l~~n-~l~~~~  510 (570)
T 2z63_A          488 TAFNSLSSLQVLNMASN-QLKSVP  510 (570)
T ss_dssp             TTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             hhhhcccCCCEEeCCCC-cCCCCC
Confidence            57889999999999987 454444

>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=99.92  E-value=3.1e-24  Score=262.70  Aligned_cols=381  Identities=16%  Similarity=0.143  Sum_probs=236.9

Q ss_pred             hcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc-ccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~-i~~l~~L~  593 (1209)
                      ....++++.++++.+..++.  ...+++|++|++++|  .+..+++..|.++++|++|++++|.++.+|.. ++++++|+
T Consensus        24 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  101 (549)
T 2z81_A           24 LTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS--RINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLK  101 (549)
T ss_dssp             CCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTS--CCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCC
T ss_pred             CCCCccEEECcCCccCccChhhhhcCCcccEEECCCC--CcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCc
Confidence            34689999999999987753  347999999999998  46677777789999999999999999988764 99999999


Q ss_pred             EEeccCcccCCc---ccccCCCCCCEEEccCCC-CCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          594 TLCLDWCQLEDV---AAIGQLKKLEILSFRYSD-IKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       594 ~L~l~~~~l~~l---~~i~~L~~L~~L~l~~~~-~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      +|++++|.++.+   ..++++++|++|++++|. +..+| ..+.++++|++|++++ +.+....+..++++++|++|+++
T Consensus       102 ~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~l~~l~~L~~L~l~  180 (549)
T 2z81_A          102 YLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKA-LSLRNYQSQSLKSIRDIHHLTLH  180 (549)
T ss_dssp             EEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEE-TTCCEECTTTTTTCSEEEEEEEE
T ss_pred             EEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccC-CcccccChhhhhccccCceEecc
Confidence            999999998854   678999999999999997 67776 4799999999999999 55666556669999999999997


Q ss_pred             CCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc-----cccCCCCeEEEEEcccCccccCCCCCccEEEEe
Q 038494          669 DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD-----LVFVELPRYRICIGEAWGIWRANSETSRLVQLH  743 (1209)
Q Consensus       669 ~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~-----~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~  743 (1209)
                      .+....      .  .......+++|+.|+++.+.....+..     ....+|+.|.+.                     
T Consensus       181 ~n~~~~------~--~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~---------------------  231 (549)
T 2z81_A          181 LSESAF------L--LEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFR---------------------  231 (549)
T ss_dssp             CSBSTT------H--HHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEE---------------------
T ss_pred             cCcccc------c--chhhHhhcccccEEEccCCccccccccccchhhhhhcccceecc---------------------
Confidence            753210      0  011235688999999998876654211     122334444332                     


Q ss_pred             cCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeecc--CCccccccCCccc
Q 038494          744 GLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGS--VGRVHRKVFPLLE  821 (1209)
Q Consensus       744 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~--~~~~~~~~~~~L~  821 (1209)
                      ...-..  .....+.                        .....+++|+.|.+.+|.... +...  ........+++|+
T Consensus       232 ~n~l~~--~~~~~l~------------------------~~~~~~~~L~~l~l~~~~~~~-~~~~~~~~~~~~~~l~~L~  284 (549)
T 2z81_A          232 GSVLTD--ESFNELL------------------------KLLRYILELSEVEFDDCTLNG-LGDFNPSESDVVSELGKVE  284 (549)
T ss_dssp             SCEEEH--HHHHHHH------------------------GGGGGCTTCCEEEEESCEEEC-CSCCCCCTTTCCCCCTTCC
T ss_pred             ccccch--hHHHHHH------------------------HHhhhhccccccccccccccc-cccccccchhhhhhhcccc
Confidence            110000  0000000                        002345667777777664211 0000  0011224466777


Q ss_pred             EEecccccccchhc-cccccc-ccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCcc
Q 038494          822 SLSLYKLINLEAIC-HSQLRE-DQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTS  899 (1209)
Q Consensus       822 ~L~l~~~~~l~~~~-~~~~~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~  899 (1209)
                      .|.+.++. +..+. ...++. ...+++|+.|++++| .++.+|. ..++++++|+.|++++|.-....+...       
T Consensus       285 ~L~l~~~~-i~~~~~~~~l~~~~~~~~~L~~L~l~~n-~l~~ip~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~-------  354 (549)
T 2z81_A          285 TVTIRRLH-IPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLVPC-SFSQHLKSLEFLDLSENLMVEEYLKNS-------  354 (549)
T ss_dssp             EEEEESCB-CSCGGGSCCCCHHHHHSTTCCEEEEESS-CCCCCCH-HHHHHCTTCCEEECCSSCCCHHHHHHH-------
T ss_pred             cccccccc-cchhhhcccchhhhhhcccceEEEeccC-ccccCCH-HHHhcCccccEEEccCCccccccccch-------
Confidence            77776642 11110 000000 123578888999887 4666665 344678888888888874322211000       


Q ss_pred             ccccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCc
Q 038494          900 LGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSL  979 (1209)
Q Consensus       900 ~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L  979 (1209)
                                   ..++.+++|+.|++++|.- +.++.. +    .....+++|+.|++++| .++.++..  ...+++|
T Consensus       355 -------------~~~~~l~~L~~L~Ls~N~l-~~~~~~-~----~~~~~l~~L~~L~Ls~N-~l~~lp~~--~~~~~~L  412 (549)
T 2z81_A          355 -------------ACKGAWPSLQTLVLSQNHL-RSMQKT-G----EILLTLKNLTSLDISRN-TFHPMPDS--CQWPEKM  412 (549)
T ss_dssp             -------------TCTTSSTTCCEEECTTSCC-CCHHHH-H----HHGGGCTTCCEEECTTC-CCCCCCSC--CCCCTTC
T ss_pred             -------------hhhhccccCcEEEccCCcc-cccccc-h----hhhhcCCCCCEEECCCC-CCccCChh--hcccccc
Confidence                         0124456777777777642 111100 0    01234566666666665 33333221  1234566


Q ss_pred             ceEeeccCC
Q 038494          980 ERVSMIRCP  988 (1209)
Q Consensus       980 ~~L~i~~C~  988 (1209)
                      ++|++++|.
T Consensus       413 ~~L~Ls~N~  421 (549)
T 2z81_A          413 RFLNLSSTG  421 (549)
T ss_dssp             CEEECTTSC
T ss_pred             cEEECCCCC
Confidence            666666653

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

Probab=99.91  E-value=9.2e-24  Score=264.27  Aligned_cols=236  Identities=14%  Similarity=0.147  Sum_probs=143.5

Q ss_pred             cccccccccccCCCCCcEEeccCcccCC------------------c-cccc--CCCCCCEEEccCCCCC-ccchhccCC
Q 038494          577 IHFSSLSSSLGHLINLQTLCLDWCQLED------------------V-AAIG--QLKKLEILSFRYSDIK-QLPLEIGQL  634 (1209)
Q Consensus       577 ~~i~~lp~~i~~l~~L~~L~l~~~~l~~------------------l-~~i~--~L~~L~~L~l~~~~~~-~lp~~i~~L  634 (1209)
                      |.++.+|..++++++|++|+|++|.++.                  + ..++  ++++|++|++++|.+. .+|..++++
T Consensus       435 N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L  514 (876)
T 4ecn_A          435 NRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDL  514 (876)
T ss_dssp             CEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGC
T ss_pred             CcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCC
Confidence            4555577778888888888888888776                  5 5555  7888888888887644 677778888


Q ss_pred             CCCCEEeccCCCCCcc--cCchhhcCC-------CCCcEEECCCCCCccccccCCCccchh--hhCCCCCCCEEEeeccC
Q 038494          635 AQLQLLDLSNCSSLVV--IAPNVISKF-------SRLEELYMGDSFPQWDKVEGGSNASLA--ELKGLSKLTTLEIQVQD  703 (1209)
Q Consensus       635 ~~L~~L~l~~~~~l~~--~~~~~l~~L-------~~L~~L~l~~~~~~~~~~~~~~~~~l~--~L~~l~~L~~L~l~~~~  703 (1209)
                      ++|++|++++|..++.  +|.. ++++       ++|++|++++|...         ....  .+..+++|+.|+++.+.
T Consensus       515 ~~L~~L~Ls~N~~lsg~~iP~~-i~~L~~~~~~l~~L~~L~Ls~N~L~---------~ip~~~~l~~L~~L~~L~Ls~N~  584 (876)
T 4ecn_A          515 PELQSLNIACNRGISAAQLKAD-WTRLADDEDTGPKIQIFYMGYNNLE---------EFPASASLQKMVKLGLLDCVHNK  584 (876)
T ss_dssp             SSCCEEECTTCTTSCHHHHHHH-HHHHHHCTTTTTTCCEEECCSSCCC---------BCCCHHHHTTCTTCCEEECTTSC
T ss_pred             CCCCEEECcCCCCcccccchHH-HHhhhhcccccCCccEEEeeCCcCC---------ccCChhhhhcCCCCCEEECCCCC
Confidence            8888888887543554  4432 4444       48888888776421         1222  57777788888887776


Q ss_pred             CCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeecccccccccccccc
Q 038494          704 AQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELD  783 (1209)
Q Consensus       704 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~  783 (1209)
                      +..+|   .+.++                                             ++|+.|.+.+.... .++   .
T Consensus       585 l~~lp---~~~~L---------------------------------------------~~L~~L~Ls~N~l~-~lp---~  612 (876)
T 4ecn_A          585 VRHLE---AFGTN---------------------------------------------VKLTDLKLDYNQIE-EIP---E  612 (876)
T ss_dssp             CCBCC---CCCTT---------------------------------------------SEESEEECCSSCCS-CCC---T
T ss_pred             cccch---hhcCC---------------------------------------------CcceEEECcCCccc-cch---H
Confidence            65443   11111                                             23333444332211 111   1


Q ss_pred             CCCCccC-CcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccc-ccc--ccCCccEEEEecCCCc
Q 038494          784 DGEGFPR-LKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLR-EDQ--FFSNLKIIEVESCDKL  859 (1209)
Q Consensus       784 ~~~~l~~-L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-~~~--~l~~L~~L~l~~c~~l  859 (1209)
                      .+..+++ |+.|+++++. +..++   ........++|+.|+++++ .+..... .++ ..+  .+++|+.|++++| .+
T Consensus       613 ~l~~l~~~L~~L~Ls~N~-L~~lp---~~~~~~~~~~L~~L~Ls~N-~l~g~ip-~l~~~l~~~~~~~L~~L~Ls~N-~L  685 (876)
T 4ecn_A          613 DFCAFTDQVEGLGFSHNK-LKYIP---NIFNAKSVYVMGSVDFSYN-KIGSEGR-NISCSMDDYKGINASTVTLSYN-EI  685 (876)
T ss_dssp             TSCEECTTCCEEECCSSC-CCSCC---SCCCTTCSSCEEEEECCSS-CTTTTSS-SCSSCTTTCCCCCEEEEECCSS-CC
T ss_pred             HHhhccccCCEEECcCCC-CCcCc---hhhhccccCCCCEEECcCC-cCCCccc-cchhhhccccCCCcCEEEccCC-cC
Confidence            2456777 8888888876 32332   1112223455888888884 3332111 011 001  2458999999987 56


Q ss_pred             cccccHHHHhhcccccEEEEecc
Q 038494          860 KHLFSFSIARNLLRLQKVKVASC  882 (1209)
Q Consensus       860 ~~l~~~~~~~~l~~L~~L~l~~c  882 (1209)
                      +.+|. ..+..+++|+.|++++|
T Consensus       686 ~~lp~-~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          686 QKFPT-ELFATGSPISTIILSNN  707 (876)
T ss_dssp             CSCCH-HHHHTTCCCSEEECCSC
T ss_pred             CccCH-HHHccCCCCCEEECCCC
Confidence            66665 34567889999999886

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

Probab=99.91  E-value=6.5e-24  Score=262.37  Aligned_cols=239  Identities=12%  Similarity=0.134  Sum_probs=153.3

Q ss_pred             CcccccccccccCCCCCcEEeccCcccCC------------------c-cccc--CCCCCCEEEccCCCCC-ccchhccC
Q 038494          576 GIHFSSLSSSLGHLINLQTLCLDWCQLED------------------V-AAIG--QLKKLEILSFRYSDIK-QLPLEIGQ  633 (1209)
Q Consensus       576 ~~~i~~lp~~i~~l~~L~~L~l~~~~l~~------------------l-~~i~--~L~~L~~L~l~~~~~~-~lp~~i~~  633 (1209)
                      +|.++.+|..++++++|++|++++|.++.                  + ..++  ++++|++|++++|.+. .+|..+++
T Consensus       192 ~n~l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~  271 (636)
T 4eco_A          192 SNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKA  271 (636)
T ss_dssp             SCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTT
T ss_pred             cCCCccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhc
Confidence            34566688888888888888888888877                  6 6777  8888888888888655 67888888


Q ss_pred             CCCCCEEeccCCCCCcc--cCchhhcCC------CCCcEEECCCCCCccccccCCCccchh--hhCCCCCCCEEEeeccC
Q 038494          634 LAQLQLLDLSNCSSLVV--IAPNVISKF------SRLEELYMGDSFPQWDKVEGGSNASLA--ELKGLSKLTTLEIQVQD  703 (1209)
Q Consensus       634 L~~L~~L~l~~~~~l~~--~~~~~l~~L------~~L~~L~l~~~~~~~~~~~~~~~~~l~--~L~~l~~L~~L~l~~~~  703 (1209)
                      +++|++|++++|..++.  +|.. ++++      ++|++|++++|...         ....  .+..+++|+.|+++.+.
T Consensus       272 l~~L~~L~Ls~n~~l~~~~lp~~-~~~L~~~~~l~~L~~L~L~~n~l~---------~ip~~~~l~~l~~L~~L~L~~N~  341 (636)
T 4eco_A          272 LPEMQLINVACNRGISGEQLKDD-WQALADAPVGEKIQIIYIGYNNLK---------TFPVETSLQKMKKLGMLECLYNQ  341 (636)
T ss_dssp             CSSCCEEECTTCTTSCHHHHHHH-HHHHHHSGGGGTCCEEECCSSCCS---------SCCCHHHHTTCTTCCEEECCSCC
T ss_pred             CCCCCEEECcCCCCCccccchHH-HHhhhccccCCCCCEEECCCCcCC---------ccCchhhhccCCCCCEEeCcCCc
Confidence            88888888888543654  4433 6665      88888888776421         2223  57778888888887766


Q ss_pred             CC-CCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccc
Q 038494          704 AQ-MLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHEL  782 (1209)
Q Consensus       704 ~~-~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l  782 (1209)
                      .. .+| .+  .+                                             +++|+.|.+.+... ..++   
T Consensus       342 l~g~ip-~~--~~---------------------------------------------l~~L~~L~L~~N~l-~~lp---  369 (636)
T 4eco_A          342 LEGKLP-AF--GS---------------------------------------------EIKLASLNLAYNQI-TEIP---  369 (636)
T ss_dssp             CEEECC-CC--EE---------------------------------------------EEEESEEECCSSEE-EECC---
T ss_pred             Cccchh-hh--CC---------------------------------------------CCCCCEEECCCCcc-cccc---
Confidence            54 333 10  00                                             12344444443221 1222   


Q ss_pred             cCCCCccC-CcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhccccccc----ccccCCccEEEEecCC
Q 038494          783 DDGEGFPR-LKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLRE----DQFFSNLKIIEVESCD  857 (1209)
Q Consensus       783 ~~~~~l~~-L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~----~~~l~~L~~L~l~~c~  857 (1209)
                      ..+..+++ |++|+++++.. ..++.   ......+++|+.|+++++ .+.......++.    .-.+++|+.|++++| 
T Consensus       370 ~~l~~l~~~L~~L~Ls~N~l-~~lp~---~~~~~~l~~L~~L~Ls~N-~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N-  443 (636)
T 4eco_A          370 ANFCGFTEQVENLSFAHNKL-KYIPN---IFDAKSVSVMSAIDFSYN-EIGSVDGKNFDPLDPTPFKGINVSSINLSNN-  443 (636)
T ss_dssp             TTSEEECTTCCEEECCSSCC-SSCCS---CCCTTCSSCEEEEECCSS-CTTTTTTCSSCTTCSSCCCCCCEEEEECCSS-
T ss_pred             HhhhhhcccCcEEEccCCcC-cccch---hhhhcccCccCEEECcCC-cCCCcchhhhcccccccccCCCCCEEECcCC-
Confidence            12456777 99999988763 23332   112233568899999884 444332222210    014668999999987 


Q ss_pred             CccccccHHHHhhcccccEEEEeccc
Q 038494          858 KLKHLFSFSIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       858 ~l~~l~~~~~~~~l~~L~~L~l~~c~  883 (1209)
                      .++.+|. ..+..+++|+.|++++|.
T Consensus       444 ~l~~lp~-~~~~~l~~L~~L~Ls~N~  468 (636)
T 4eco_A          444 QISKFPK-ELFSTGSPLSSINLMGNM  468 (636)
T ss_dssp             CCCSCCT-HHHHTTCCCSEEECCSSC
T ss_pred             ccCcCCH-HHHccCCCCCEEECCCCC
Confidence            5667765 345668888888888763

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.90  E-value=6.5e-23  Score=256.35  Aligned_cols=511  Identities=16%  Similarity=0.091  Sum_probs=280.5

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L  592 (1209)
                      .++..++++.+++|.+..++..  ..+++|++|++++|  .+..+++..|.++++|++|+|++|.++.+|. .|.++.+|
T Consensus        49 ~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N--~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L  126 (635)
T 4g8a_A           49 NLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC--EIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL  126 (635)
T ss_dssp             SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC--CCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTC
T ss_pred             CCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCC--cCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCC
Confidence            4677899999999999998753  48999999999998  5788888889999999999999999999875 68999999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCCc--cchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCc----E
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQ--LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE----E  664 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~----~  664 (1209)
                      ++|++++|.++.+  ..++++++|++|++++|.++.  +|..++++++|++|++++ +.++.+++..+..+.+++    .
T Consensus       127 ~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~l~~L~~l~~~~~~  205 (635)
T 4g8a_A          127 QKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYCTDLRVLHQMPLLNLS  205 (635)
T ss_dssp             CEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCS-SCCCEECGGGGHHHHTCTTCCCE
T ss_pred             CEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccC-ccccccccccccchhhhhhhhhh
Confidence            9999999999988  468999999999999998874  577889999999999999 677777766666555544    4


Q ss_pred             EECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc---cccCCCCeEEEEEcccCccccCCCCCccEEE
Q 038494          665 LYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD---LVFVELPRYRICIGEAWGIWRANSETSRLVQ  741 (1209)
Q Consensus       665 L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~---~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~  741 (1209)
                      ++++.+.....         .........+..+.+..+....-...   .....++...+..+.......          
T Consensus       206 ~~ls~n~l~~i---------~~~~~~~~~~~~l~l~~n~~~~~~~~~~~~~l~~l~~~~l~~~~~~~~~~----------  266 (635)
T 4g8a_A          206 LDLSLNPMNFI---------QPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGN----------  266 (635)
T ss_dssp             EECTTCCCCEE---------CTTTTTTCEEEEEEEESCCSSHHHHHHHHHTTTTCEEEEEEEECCTTSCC----------
T ss_pred             hhcccCccccc---------CcccccchhhhhhhhhcccccccccchhhcCCcccccccccccccccccc----------
Confidence            55554432110         01111112233444443321100000   012222222222111100000          


Q ss_pred             EecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCccc
Q 038494          742 LHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLE  821 (1209)
Q Consensus       742 l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~  821 (1209)
                      +.......        ......+....+..................+.+++.+.+.++.... +      .....+.+|+
T Consensus       267 l~~~~~~~--------~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~-~------~~~~~~~~L~  331 (635)
T 4g8a_A          267 LEKFDKSA--------LEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIER-V------KDFSYNFGWQ  331 (635)
T ss_dssp             CSCCCTTT--------TGGGGGSEEEEEEEECCCSCEEECTTTTGGGTTCSEEEEESCEEEE-C------GGGGSCCCCS
T ss_pred             cccccccc--------cccccchhhhhhhhhhhcccccchhhhhhhhccccccccccccccc-c------cccccchhhh
Confidence            00000000        0000111111111100000000011112334555555555443211 0      0112234556


Q ss_pred             EEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCcccc
Q 038494          822 SLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLG  901 (1209)
Q Consensus       822 ~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~  901 (1209)
                      .|.+.++. +..+     +. ..++.|+.+.+..+..- ..+.   ...+++|+.|+++.+.-......           
T Consensus       332 ~L~l~~~~-~~~~-----~~-~~l~~L~~l~l~~n~~~-~~~~---~~~l~~L~~L~ls~n~l~~~~~~-----------  389 (635)
T 4g8a_A          332 HLELVNCK-FGQF-----PT-LKLKSLKRLTFTSNKGG-NAFS---EVDLPSLEFLDLSRNGLSFKGCC-----------  389 (635)
T ss_dssp             EEEEESCE-ESSC-----CC-CBCTTCCEEEEESCCSC-CBCC---CCBCTTCCEEECCSSCCBEEEEC-----------
T ss_pred             hhhccccc-ccCc-----Cc-ccchhhhhcccccccCC-CCcc---cccccccccchhhcccccccccc-----------
Confidence            66655532 2211     11 23555666665554322 1111   12355666666554321110000           


Q ss_pred             ccccccCCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcce
Q 038494          902 FNEIIADDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLER  981 (1209)
Q Consensus       902 ~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~  981 (1209)
                                ........+|+.+++..+.....         ......+++|+.+.+..+....... ......+++++.
T Consensus       390 ----------~~~~~~~~~L~~L~~~~~~~~~~---------~~~~~~l~~L~~l~l~~~~~~~~~~-~~~~~~l~~l~~  449 (635)
T 4g8a_A          390 ----------SQSDFGTISLKYLDLSFNGVITM---------SSNFLGLEQLEHLDFQHSNLKQMSE-FSVFLSLRNLIY  449 (635)
T ss_dssp             ----------CHHHHSCSCCCEEECCSCSEEEE---------CSCCTTCTTCCEEECTTSEEESTTS-SCTTTTCTTCCE
T ss_pred             ----------ccchhhhhhhhhhhccccccccc---------cccccccccccchhhhhcccccccc-cccccccccccc
Confidence                      00012234555555554432211         0112235566666665554333322 222234666777


Q ss_pred             EeeccCCCccccccCccccCCCcccccccccccccccccccccchhhhhh---hhhhccccccceEEeeccCCceeeccC
Q 038494          982 VSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKY---YKEMIGFRDIWYLQLSHFPRLKEIWHG 1058 (1209)
Q Consensus       982 L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~---~~~~~~~~~L~~L~l~~~~~L~~~~~~ 1058 (1209)
                      ++++.+. +...         +.....      .+++|+.|++++|....   ...+..+++|+.|+++++ +++.+...
T Consensus       450 l~ls~n~-l~~~---------~~~~~~------~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N-~L~~l~~~  512 (635)
T 4g8a_A          450 LDISHTH-TRVA---------FNGIFN------GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPT  512 (635)
T ss_dssp             EECTTSC-CEEC---------CTTTTT------TCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTT
T ss_pred             ccccccc-cccc---------cccccc------cchhhhhhhhhhcccccccCchhhhhccccCEEECCCC-ccCCcChH
Confidence            7776653 2211         111111      36677777777764321   223456788888888884 56666443


Q ss_pred             CCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccccccccCCCccc-ccccccccccc
Q 038494         1059 QALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMF-PKLSNLRLIDL 1137 (1209)
Q Consensus      1059 ~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l-~~L~~L~i~~c 1137 (1209)
                      .   +..+++|++|+++++ ++.. ++...+.++++|+.|++++|. |+.+++         ..+..+ ++|+.|++.+.
T Consensus       513 ~---f~~l~~L~~L~Ls~N-~l~~-l~~~~~~~l~~L~~L~Ls~N~-l~~~~~---------~~l~~l~~~L~~L~L~~N  577 (635)
T 4g8a_A          513 A---FNSLSSLQVLNMSHN-NFFS-LDTFPYKCLNSLQVLDYSLNH-IMTSKK---------QELQHFPSSLAFLNLTQN  577 (635)
T ss_dssp             T---TTTCTTCCEEECTTS-CCCB-CCCGGGTTCTTCCEEECTTSC-CCBCCS---------SCTTCCCTTCCEEECTTC
T ss_pred             H---HcCCCCCCEEECCCC-cCCC-CChhHHhCCCCCCEEECCCCc-CCCCCH---------HHHHhhhCcCCEEEeeCC
Confidence            3   667788888888775 5555 344557788888888888887 665533         223344 67888888763

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

Probab=99.90  E-value=1.9e-23  Score=258.12  Aligned_cols=131  Identities=13%  Similarity=0.082  Sum_probs=72.6

Q ss_pred             ccccccccchhhhhhhh-hhc--cccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecC-----CCCccccchhh
Q 038494         1017 HHWEGNNLNSIMQKYYK-EMI--GFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDC-----TNMSSAIPANL 1088 (1209)
Q Consensus      1017 ~~L~~L~l~~~~~~~~~-~~~--~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c-----~~l~~~~~~~~ 1088 (1209)
                      ++|+.|++++|.....+ .+.  .+++|+.|+++++ .++.++    ..+..+++|+.|+++++     +.+...+|.. 
T Consensus       488 ~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N-~l~~ip----~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~-  561 (636)
T 4eco_A          488 YLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYN-SFSKFP----TQPLNSSTLKGFGIRNQRDAQGNRTLREWPEG-  561 (636)
T ss_dssp             GGCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCSS-CCSSCC----CGGGGCSSCCEEECCSCBCTTCCBCCCCCCTT-
T ss_pred             CCccEEECcCCcCCccChhhhhccCCCcCEEECCCC-CCCCcC----hhhhcCCCCCEEECCCCcccccCcccccChHH-
Confidence            36666666665443222 233  5677777777773 444432    22556777888877542     2333345554 


Q ss_pred             HhhhccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCC-------CccCCCCccEEee
Q 038494         1089 LRCLNNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTG-------NIIELPELRYLTI 1161 (1209)
Q Consensus      1089 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~-------~l~~l~~L~~L~i 1161 (1209)
                      +.++++|+.|++++|. ++.+|..            ..++|+.|++++++ +.+++. .+       ....+...+..+|
T Consensus       562 l~~l~~L~~L~Ls~N~-l~~ip~~------------~~~~L~~L~Ls~N~-l~~~~~-~~~~~~~~~~~~~l~~~~~~~i  626 (636)
T 4eco_A          562 ITLCPSLTQLQIGSND-IRKVNEK------------ITPNISVLDIKDNP-NISIDL-SYVCPYIEAGMYMLFYDKTQDI  626 (636)
T ss_dssp             GGGCSSCCEEECCSSC-CCBCCSC------------CCTTCCEEECCSCT-TCEEEC-TTTHHHHHTTCCEEECCTTSEE
T ss_pred             HhcCCCCCEEECCCCc-CCccCHh------------HhCcCCEEECcCCC-CccccH-HhcchhhhcccceeecCCcccc
Confidence            4667888888888877 5555321            22678888888743 444331 11       1112233345567


Q ss_pred             ecCCCcc
Q 038494         1162 ENCPDME 1168 (1209)
Q Consensus      1162 ~~C~~l~ 1168 (1209)
                      .+|+.|+
T Consensus       627 ~~C~~L~  633 (636)
T 4eco_A          627 RGCDALD  633 (636)
T ss_dssp             ESCGGGC
T ss_pred             CCCcccc
Confidence            7787764

>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=99.90  E-value=1.7e-22  Score=247.27  Aligned_cols=128  Identities=16%  Similarity=0.240  Sum_probs=85.5

Q ss_pred             ccccccccccchhhhhhh----hhhccccccceEEeeccCCcee-eccCCCCCcccCCCccEEEEecCCCCccccchhhH
Q 038494         1015 ELHHWEGNNLNSIMQKYY----KEMIGFRDIWYLQLSHFPRLKE-IWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLL 1089 (1209)
Q Consensus      1015 ~l~~L~~L~l~~~~~~~~----~~~~~~~~L~~L~l~~~~~L~~-~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~ 1089 (1209)
                      .+++|+.|++++|.....    ..+..+++|+.|+++++. ++. ++..   .+..+++|++|++++|. +....|.   
T Consensus       375 ~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~---~~~~l~~L~~L~l~~n~-l~~~~~~---  446 (562)
T 3a79_B          375 TLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNS-LNSHAYDR---TCAWAESILVLNLSSNM-LTGSVFR---  446 (562)
T ss_dssp             SCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSC-CBSCCSSC---CCCCCTTCCEEECCSSC-CCGGGGS---
T ss_pred             ccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCc-CCCccChh---hhcCcccCCEEECCCCC-CCcchhh---
Confidence            366777777776654321    224567888888888743 443 4332   25567888999888764 3332332   


Q ss_pred             hhh-ccCcEEEEccCCchhhhhhcccccccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCC
Q 038494         1090 RCL-NNLRRLEVRNCDSLEEVLRLEELNADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCP 1165 (1209)
Q Consensus      1090 ~~l-~~L~~L~i~~c~~l~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~ 1165 (1209)
                       .+ ++|+.|++++|. ++.+|...         + .+++|+.|++++ ++++.+|.  +.+..+++|+.|+++++|
T Consensus       447 -~l~~~L~~L~L~~N~-l~~ip~~~---------~-~l~~L~~L~L~~-N~l~~l~~--~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          447 -CLPPKVKVLDLHNNR-IMSIPKDV---------T-HLQALQELNVAS-NQLKSVPD--GVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             -SCCTTCSEEECCSSC-CCCCCTTT---------T-SSCCCSEEECCS-SCCCCCCT--TSTTTCTTCCCEECCSCC
T ss_pred             -hhcCcCCEEECCCCc-CcccChhh---------c-CCCCCCEEECCC-CCCCCCCH--HHHhcCCCCCEEEecCCC
Confidence             33 688899998886 77664322         2 678889999888 57777775  347788888888888865

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

Probab=99.89  E-value=6.5e-23  Score=256.62  Aligned_cols=70  Identities=23%  Similarity=0.369  Sum_probs=47.0

Q ss_pred             cccCCc-ccccCCCCCCEEEccCCCCCc------------------cchhcc--CCCCCCEEeccCCCCCcccCchhhcC
Q 038494          600 CQLEDV-AAIGQLKKLEILSFRYSDIKQ------------------LPLEIG--QLAQLQLLDLSNCSSLVVIAPNVISK  658 (1209)
Q Consensus       600 ~~l~~l-~~i~~L~~L~~L~l~~~~~~~------------------lp~~i~--~L~~L~~L~l~~~~~l~~~~~~~l~~  658 (1209)
                      |.++.+ ..++++++|++|++++|.++.                  +|..++  ++++|++|++++|.....+|. .+++
T Consensus       435 N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~-~l~~  513 (876)
T 4ecn_A          435 NRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPD-FLYD  513 (876)
T ss_dssp             CEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCG-GGGG
T ss_pred             CcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChH-HHhC
Confidence            344445 567777777777777777776                  777766  777777777777554444543 3777


Q ss_pred             CCCCcEEECCCC
Q 038494          659 FSRLEELYMGDS  670 (1209)
Q Consensus       659 L~~L~~L~l~~~  670 (1209)
                      +++|++|++++|
T Consensus       514 L~~L~~L~Ls~N  525 (876)
T 4ecn_A          514 LPELQSLNIACN  525 (876)
T ss_dssp             CSSCCEEECTTC
T ss_pred             CCCCCEEECcCC
Confidence            777777777665

>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=99.89  E-value=2.7e-22  Score=245.49  Aligned_cols=461  Identities=18%  Similarity=0.171  Sum_probs=240.5

Q ss_pred             eEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccC
Q 038494          521 AIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       521 ~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~  599 (1209)
                      .+++.++++.+..+|.... +++++|++++|  .+..++...|.++++|++|++++|.++.+ |..++.+++|++|++++
T Consensus        33 ~~~l~ls~~~L~~ip~~~~-~~L~~L~Ls~N--~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~  109 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDLP-PRTKALSLSQN--SISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSH  109 (562)
T ss_dssp             CCEEECTTSCCCSCCTTSC-TTCCEEECCSS--CCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             CcEEEcCCCCCccCCCCCC-CCcCEEECCCC--CccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCC
Confidence            3778888888888876543 78888888887  46667766678888888888888888766 56788888888888888


Q ss_pred             cccCCcccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccCCCCCcccCchhhcCCCCC--cEEECCCCCCccc
Q 038494          600 CQLEDVAAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRL--EELYMGDSFPQWD  675 (1209)
Q Consensus       600 ~~l~~l~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L--~~L~l~~~~~~~~  675 (1209)
                      |.++.++.. .+++|++|++++|.++.+|  ..++++++|++|++++ +.+....   +..+++|  ++|+++++.... 
T Consensus       110 N~l~~lp~~-~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~-n~l~~~~---~~~l~~L~L~~L~L~~n~l~~-  183 (562)
T 3a79_B          110 NRLQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSA-AKFRQLD---LLPVAHLHLSCILLDLVSYHI-  183 (562)
T ss_dssp             SCCCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEEC-SBCCTTT---TGGGTTSCEEEEEEEESSCCC-
T ss_pred             CcCCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecCC-CccccCc---hhhhhhceeeEEEeecccccc-
Confidence            888777333 7888888888888877654  6788888888888887 4444322   3444444  777776653200 


Q ss_pred             cccCCCccchhhhCCCCCCCEE--EeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhh
Q 038494          676 KVEGGSNASLAELKGLSKLTTL--EIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLE  753 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~L~~L--~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~  753 (1209)
                        ....   ...+..+.. +.+  +++.+..........+.++.                                    
T Consensus       184 --~~~~---~~~l~~l~~-~~l~l~l~~n~~~~~~~~~~~~~l~------------------------------------  221 (562)
T 3a79_B          184 --KGGE---TESLQIPNT-TVLHLVFHPNSLFSVQVNMSVNALG------------------------------------  221 (562)
T ss_dssp             --CSSS---CCEEEECCE-EEEEEEECSSSCCCCCCEEEESSEE------------------------------------
T ss_pred             --cccC---cccccccCc-ceEEEEecCccchhhhhhhcccccc------------------------------------
Confidence              0011   112222211 222  33332222111111111111                                    


Q ss_pred             HHHHHHHhcccceeeecccc-ccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccc
Q 038494          754 NYGMKMLLKLTEDIRLEELT-GVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLE  832 (1209)
Q Consensus       754 ~~~~~~~~~~L~~L~l~~~~-~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  832 (1209)
                               +|+.+++.... .+......+..+..+++|+.|.+.++.-.....  .........++|+.|+++++. +.
T Consensus       222 ---------~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~--~~~~~~~~~~~L~~L~l~~n~-l~  289 (562)
T 3a79_B          222 ---------HLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCS--VKLFQFFWPRPVEYLNIYNLT-IT  289 (562)
T ss_dssp             ---------EEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHH--HHHHHHHTTSSEEEEEEEEEE-EC
T ss_pred             ---------eEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHH--HHHHHhhhcccccEEEEeccE-ee
Confidence                     12222221110 000001111112345556666665543110000  000011123467777776642 22


Q ss_pred             -hhccccccc-ccccCCccEEEEecCCCccccccHHHHhh---cccccEEEEecccccccccccCCCCCCcccccccccc
Q 038494          833 -AICHSQLRE-DQFFSNLKIIEVESCDKLKHLFSFSIARN---LLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIA  907 (1209)
Q Consensus       833 -~~~~~~~~~-~~~l~~L~~L~l~~c~~l~~l~~~~~~~~---l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~  907 (1209)
                       .++...+.. .+.++.|+.+++..+. + .+|.. .+..   ..+|+.|++++|.-. ...                  
T Consensus       290 ~~ip~~~~~~~~~~L~~L~~~~~~~~~-~-~~p~~-~~~~~~~~~~L~~L~l~~n~~~-~~~------------------  347 (562)
T 3a79_B          290 ERIDREEFTYSETALKSLMIEHVKNQV-F-LFSKE-ALYSVFAEMNIKMLSISDTPFI-HMV------------------  347 (562)
T ss_dssp             SCCCCCCCCCCSCSCCEEEEEEEEECC-C-SSCHH-HHHHHHHTCCCSEEEEESSCCC-CCC------------------
T ss_pred             ccccchhhhcccccchheehhhcccce-e-ecChh-hhhhhhccCcceEEEccCCCcc-ccc------------------
Confidence             221111000 0223334444444432 2 33321 2222   255888888776321 100                  


Q ss_pred             CCCCCCCccCccccceEeeccccchhhhhccccccccccccccccchhhhhccCCccccccc-ccccccCCCcceEeecc
Q 038494          908 DDDTAPKVGIPSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCL-ENYTLEFPSLERVSMIR  986 (1209)
Q Consensus       908 ~~~~~~~l~~~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~-~~~~~~~~~L~~L~i~~  986 (1209)
                            ....+++|+.|++++|..-..++.        ....+++|+.|+++++. ++.++. ......+++|+.|++++
T Consensus       348 ------~~~~l~~L~~L~l~~n~l~~~~~~--------~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~l~~L~~L~l~~  412 (562)
T 3a79_B          348 ------CPPSPSSFTFLNFTQNVFTDSVFQ--------GCSTLKRLQTLILQRNG-LKNFFKVALMTKNMSSLETLDVSL  412 (562)
T ss_dssp             ------CCSSCCCCCEEECCSSCCCTTTTT--------TCCSCSSCCEEECCSSC-CCBTTHHHHTTTTCTTCCEEECTT
T ss_pred             ------CccCCCCceEEECCCCccccchhh--------hhcccCCCCEEECCCCC-cCCcccchhhhcCCCCCCEEECCC
Confidence                  013456778888877753322221        23457778888887753 443321 11123578888888888


Q ss_pred             CCCccccccCccccCCCcccccccccccccccccccccchhhhhhhhhhccc-cccceEEeeccCCceeeccCCCCCccc
Q 038494          987 CPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGF-RDIWYLQLSHFPRLKEIWHGQALPVSF 1065 (1209)
Q Consensus       987 C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~~L~~L~l~~~~~L~~~~~~~~~~~~~ 1065 (1209)
                      |.--.         .+|...+.      .+++|+.|++++|...... ...+ ++|+.|+++++ .++.++..    +..
T Consensus       413 N~l~~---------~~~~~~~~------~l~~L~~L~l~~n~l~~~~-~~~l~~~L~~L~L~~N-~l~~ip~~----~~~  471 (562)
T 3a79_B          413 NSLNS---------HAYDRTCA------WAESILVLNLSSNMLTGSV-FRCLPPKVKVLDLHNN-RIMSIPKD----VTH  471 (562)
T ss_dssp             SCCBS---------CCSSCCCC------CCTTCCEEECCSSCCCGGG-GSSCCTTCSEEECCSS-CCCCCCTT----TTS
T ss_pred             CcCCC---------ccChhhhc------CcccCCEEECCCCCCCcch-hhhhcCcCCEEECCCC-cCcccChh----hcC
Confidence            75322         13333222      4677777777776542111 1122 56777777763 55554332    235


Q ss_pred             CCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCC
Q 038494         1066 FNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCD 1104 (1209)
Q Consensus      1066 l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~ 1104 (1209)
                      +++|++|+++++ .+.. +|...+..+++|+.|++++++
T Consensus       472 l~~L~~L~L~~N-~l~~-l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          472 LQALQELNVASN-QLKS-VPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             SCCCSEEECCSS-CCCC-CCTTSTTTCTTCCCEECCSCC
T ss_pred             CCCCCEEECCCC-CCCC-CCHHHHhcCCCCCEEEecCCC
Confidence            667777777664 4443 454445667777777777665

>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=99.88  E-value=7.5e-22  Score=239.55  Aligned_cols=137  Identities=19%  Similarity=0.287  Sum_probs=113.6

Q ss_pred             hcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcE
Q 038494          517 IQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQT  594 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~  594 (1209)
                      .+.+++++.++++.+..++.  ...+++|++|++++|  .+..+++..|.++++|++|++++|.++.+|..  .+++|++
T Consensus        19 ~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~   94 (520)
T 2z7x_B           19 LSQKTTILNISQNYISELWTSDILSLSKLRILIISHN--RIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKH   94 (520)
T ss_dssp             CCTTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSS--CCCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSE
T ss_pred             ccccccEEECCCCcccccChhhccccccccEEecCCC--ccCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccE
Confidence            34789999999999988864  347999999999998  46677677789999999999999999999987  8999999


Q ss_pred             EeccCcccCCc---ccccCCCCCCEEEccCCCCCccchhccCCCCC--CEEeccCCCCC--cccCchhhcCCC
Q 038494          595 LCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQL--QLLDLSNCSSL--VVIAPNVISKFS  660 (1209)
Q Consensus       595 L~l~~~~l~~l---~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L--~~L~l~~~~~l--~~~~~~~l~~L~  660 (1209)
                      |++++|.++.+   ..++++++|++|++++|.+..  ..+..+++|  ++|++++|. +  ....+..+..+.
T Consensus        95 L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~-l~~~~~~~~~l~~l~  164 (520)
T 2z7x_B           95 LDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGE-TYGEKEDPEGLQDFN  164 (520)
T ss_dssp             EECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECT-TTTSSCCTTTTTTCC
T ss_pred             EeccCCccccccchhhhccCCcceEEEecCcccch--hhccccccceeeEEEeeccc-ccccccccccccccc
Confidence            99999998863   689999999999999998876  356778888  999999854 4  333333355554

>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=99.87  E-value=6.3e-21  Score=227.29  Aligned_cols=100  Identities=22%  Similarity=0.388  Sum_probs=54.1

Q ss_pred             cCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEecc
Q 038494          564 EGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLS  643 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~  643 (1209)
                      ..+++|++|++++|.++.+|. ++++++|++|++++|.+..+..++++++|++|++++|.++.+|. +.++++|++|+++
T Consensus        65 ~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~  142 (466)
T 1o6v_A           65 EYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELS  142 (466)
T ss_dssp             GGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEEE
T ss_pred             hhhcCCCEEECCCCccCCchh-hhccccCCEEECCCCccccChhhcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEECC
Confidence            445555555555555555554 55555555555555555555335555555555555555555543 5555555555555


Q ss_pred             CCCCCcccCchhhcCCCCCcEEECC
Q 038494          644 NCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       644 ~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      +| .+..++.  ++++++|++|+++
T Consensus       143 ~n-~l~~~~~--~~~l~~L~~L~l~  164 (466)
T 1o6v_A          143 SN-TISDISA--LSGLTSLQQLSFG  164 (466)
T ss_dssp             EE-EECCCGG--GTTCTTCSEEEEE
T ss_pred             CC-ccCCChh--hccCCcccEeecC
Confidence            52 3333321  4555555555543

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.86  E-value=7.2e-21  Score=224.39  Aligned_cols=118  Identities=22%  Similarity=0.240  Sum_probs=72.8

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEc
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSF  619 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l  619 (1209)
                      +++|++|+++++.  +..++  .+..+++|++|++++|.++.+|  ++.+++|++|++++|.++.++ ++++++|++|++
T Consensus        41 l~~L~~L~Ls~n~--l~~~~--~l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~-~~~l~~L~~L~L  113 (457)
T 3bz5_A           41 LATLTSLDCHNSS--ITDMT--GIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD-VTPLTKLTYLNC  113 (457)
T ss_dssp             HTTCCEEECCSSC--CCCCT--TGGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC-CTTCTTCCEEEC
T ss_pred             cCCCCEEEccCCC--cccCh--hhcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee-cCCCCcCCEEEC
Confidence            4556666665552  33333  2456666666666666666664  666666667776666666553 666666677777


Q ss_pred             cCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          620 RYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       620 ~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++|.++.+|  ++++++|++|++++ +.++.++   ++++++|++|++++|
T Consensus       114 ~~N~l~~l~--~~~l~~L~~L~l~~-N~l~~l~---l~~l~~L~~L~l~~n  158 (457)
T 3bz5_A          114 DTNKLTKLD--VSQNPLLTYLNCAR-NTLTEID---VSHNTQLTELDCHLN  158 (457)
T ss_dssp             CSSCCSCCC--CTTCTTCCEEECTT-SCCSCCC---CTTCTTCCEEECTTC
T ss_pred             CCCcCCeec--CCCCCcCCEEECCC-Cccceec---cccCCcCCEEECCCC
Confidence            666666654  56666667776666 3454442   556666666666654

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

Probab=99.86  E-value=3.7e-20  Score=220.57  Aligned_cols=342  Identities=14%  Similarity=0.164  Sum_probs=232.2

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ...++.+.+.++.+..++....+++|++|++++|  .+..++.  +.++++|++|++++|.+..++. ++++++|++|++
T Consensus        45 l~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n--~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L  119 (466)
T 1o6v_A           45 LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNN--QLTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  119 (466)
T ss_dssp             HHTCCEEECCSSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEEC
T ss_pred             hccccEEecCCCCCccCcchhhhcCCCEEECCCC--ccCCchh--hhccccCCEEECCCCccccChh-hcCCCCCCEEEC
Confidence            4579999999999999988778999999999998  4555655  7899999999999999999887 999999999999


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccc
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      ++|.++.+..+.++++|++|++++|.+..+| .++++++|++|++++  .+...++  +.++++|++|+++++...    
T Consensus       120 ~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~l~~--~~~~~~~--~~~l~~L~~L~l~~n~l~----  190 (466)
T 1o6v_A          120 FNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLSFGN--QVTDLKP--LANLTTLERLDISSNKVS----  190 (466)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEEEEEEEECCCG-GGTTCTTCSEEEEEE--SCCCCGG--GTTCTTCCEEECCSSCCC----
T ss_pred             CCCCCCCChHHcCCCCCCEEECCCCccCCCh-hhccCCcccEeecCC--cccCchh--hccCCCCCEEECcCCcCC----
Confidence            9999999977999999999999999988886 489999999999974  4444443  889999999999887421    


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHH
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGM  757 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~  757 (1209)
                            .+..+..+++|+.|+++.+.....+....+.                                           
T Consensus       191 ------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~-------------------------------------------  221 (466)
T 1o6v_A          191 ------DISVLAKLTNLESLIATNNQISDITPLGILT-------------------------------------------  221 (466)
T ss_dssp             ------CCGGGGGCTTCSEEECCSSCCCCCGGGGGCT-------------------------------------------
T ss_pred             ------CChhhccCCCCCEEEecCCcccccccccccC-------------------------------------------
Confidence                  1234778899999999887765443222223                                           


Q ss_pred             HHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhccc
Q 038494          758 KMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHS  837 (1209)
Q Consensus       758 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  837 (1209)
                           +|+.|++.++.. ..    ++.+..+++|++|+++++.... +      .....+++|+.|+++++ .+..+.. 
T Consensus       222 -----~L~~L~l~~n~l-~~----~~~l~~l~~L~~L~l~~n~l~~-~------~~~~~l~~L~~L~l~~n-~l~~~~~-  282 (466)
T 1o6v_A          222 -----NLDELSLNGNQL-KD----IGTLASLTNLTDLDLANNQISN-L------APLSGLTKLTELKLGAN-QISNISP-  282 (466)
T ss_dssp             -----TCCEEECCSSCC-CC----CGGGGGCTTCSEEECCSSCCCC-C------GGGTTCTTCSEEECCSS-CCCCCGG-
T ss_pred             -----CCCEEECCCCCc-cc----chhhhcCCCCCEEECCCCcccc-c------hhhhcCCCCCEEECCCC-ccCcccc-
Confidence                 333344433211 11    1123556777777777764211 1      11344677777777763 3443321 


Q ss_pred             ccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccC
Q 038494          838 QLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGI  917 (1209)
Q Consensus       838 ~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  917 (1209)
                          ...+++|+.|++++| .++.++.   +..+++|+.|++++|. +....                        .+..
T Consensus       283 ----~~~l~~L~~L~L~~n-~l~~~~~---~~~l~~L~~L~L~~n~-l~~~~------------------------~~~~  329 (466)
T 1o6v_A          283 ----LAGLTALTNLELNEN-QLEDISP---ISNLKNLTYLTLYFNN-ISDIS------------------------PVSS  329 (466)
T ss_dssp             ----GTTCTTCSEEECCSS-CCSCCGG---GGGCTTCSEEECCSSC-CSCCG------------------------GGGG
T ss_pred             ----ccCCCccCeEEcCCC-cccCchh---hcCCCCCCEEECcCCc-CCCch------------------------hhcc
Confidence                245777777777776 3444433   4567777777777663 22111                        1244


Q ss_pred             ccccceEeeccccchhhhhccccccccccccccccchhhhhccCCcccccccccccccCCCcceEeeccCC
Q 038494          918 PSSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCP  988 (1209)
Q Consensus       918 ~~sL~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~  988 (1209)
                      +++|+.|++++|.. +.+         .....+++|+.|++++|. +..+.+   ...+++|+.|++++|+
T Consensus       330 l~~L~~L~l~~n~l-~~~---------~~l~~l~~L~~L~l~~n~-l~~~~~---~~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          330 LTKLQRLFFYNNKV-SDV---------SSLANLTNINWLSAGHNQ-ISDLTP---LANLTRITQLGLNDQA  386 (466)
T ss_dssp             CTTCCEEECCSSCC-CCC---------GGGTTCTTCCEEECCSSC-CCBCGG---GTTCTTCCEEECCCEE
T ss_pred             CccCCEeECCCCcc-CCc---------hhhccCCCCCEEeCCCCc-cCccch---hhcCCCCCEEeccCCc
Confidence            56677777766632 211         123346667777776664 333322   2346777777777764

>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=99.85  E-value=5.9e-20  Score=210.19  Aligned_cols=148  Identities=21%  Similarity=0.359  Sum_probs=97.4

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILS  618 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~  618 (1209)
                      .+++|++|++.++.  +..++.  +..+++|++|++++|.++.+|. +..+++|++|++++|.++.++.+.++++|++|+
T Consensus        42 ~l~~L~~L~l~~~~--i~~~~~--~~~~~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~  116 (347)
T 4fmz_A           42 ELESITKLVVAGEK--VASIQG--IEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNKITDISALQNLTNLRELY  116 (347)
T ss_dssp             HHTTCSEEECCSSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             hcccccEEEEeCCc--cccchh--hhhcCCccEEEccCCccccchh-hhcCCcCCEEEccCCcccCchHHcCCCcCCEEE
Confidence            45666666666652  333432  4667777777777777777766 777777777777777777776677777777777


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      +++|.+..+|. +.++++|++|++++|......+.  +..+++|++|+++++...          .+..+..+++|+.|+
T Consensus       117 l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~----------~~~~~~~l~~L~~L~  183 (347)
T 4fmz_A          117 LNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVK----------DVTPIANLTDLYSLS  183 (347)
T ss_dssp             CTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCC----------CCGGGGGCTTCSEEE
T ss_pred             CcCCcccCchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcC----------CchhhccCCCCCEEE
Confidence            77777777665 67777777777777655554433  677777777777665321          111255666777777


Q ss_pred             eeccCC
Q 038494          699 IQVQDA  704 (1209)
Q Consensus       699 l~~~~~  704 (1209)
                      ++.+..
T Consensus       184 l~~n~l  189 (347)
T 4fmz_A          184 LNYNQI  189 (347)
T ss_dssp             CTTSCC
T ss_pred             ccCCcc
Confidence            665544

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.84  E-value=1.9e-19  Score=212.29  Aligned_cols=165  Identities=15%  Similarity=0.154  Sum_probs=138.2

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ...+++++.++++.+..+|....+++|++|++++|.  +..++   +..+++|++|++++|.++.+|  ++++++|++|+
T Consensus        40 ~l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~--l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~  112 (457)
T 3bz5_A           40 QLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNN--ITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLN  112 (457)
T ss_dssp             HHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSC--CSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEE
T ss_pred             HcCCCCEEEccCCCcccChhhcccCCCCEEEccCCc--CCeEc---cccCCCCCEEECcCCCCceee--cCCCCcCCEEE
Confidence            356899999999999988866689999999999984  44454   689999999999999999886  89999999999


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      +++|.++.++ ++++++|++|++++|.++.+|  ++++++|++|++++|..+..++   ++.+++|++|+++++....  
T Consensus       113 L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l~~--  184 (457)
T 3bz5_A          113 CDTNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKITE--  184 (457)
T ss_dssp             CCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCCCC--
T ss_pred             CCCCcCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCccce--
Confidence            9999998875 899999999999999999885  8899999999999976666652   7789999999998764311  


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                              + .+..+++|+.|+++.+.+.
T Consensus       185 --------l-~l~~l~~L~~L~l~~N~l~  204 (457)
T 3bz5_A          185 --------L-DVSQNKLLNRLNCDTNNIT  204 (457)
T ss_dssp             --------C-CCTTCTTCCEEECCSSCCS
T ss_pred             --------e-ccccCCCCCEEECcCCcCC
Confidence                    1 1566778888888766543

>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=99.83  E-value=1.7e-20  Score=221.08  Aligned_cols=165  Identities=18%  Similarity=0.155  Sum_probs=73.7

Q ss_pred             cccchhhhhccCCcccccccccccccCCCcceEeeccCCCccccccCccccCCCcccccccccccccccccccccchhhh
Q 038494          950 FSELKVLILNYLSRLTSFCLENYTLEFPSLERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQ 1029 (1209)
Q Consensus       950 ~~~L~~L~L~~~~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~l~~~~~~~~~p~~~~~~~~~~~~l~~L~~L~l~~~~~ 1029 (1209)
                      +++|+.|+++++. +..++.     .+++|+.|++++|. ++.++.                   ..++|+.|++++|..
T Consensus       256 ~~~L~~L~l~~N~-l~~l~~-----~~~~L~~L~ls~N~-l~~l~~-------------------~~~~L~~L~l~~N~l  309 (454)
T 1jl5_A          256 PPSLEALNVRDNY-LTDLPE-----LPQSLTFLDVSENI-FSGLSE-------------------LPPNLYYLNASSNEI  309 (454)
T ss_dssp             CTTCCEEECCSSC-CSCCCC-----CCTTCCEEECCSSC-CSEESC-------------------CCTTCCEEECCSSCC
T ss_pred             ccccCEEECCCCc-ccccCc-----ccCcCCEEECcCCc-cCcccC-------------------cCCcCCEEECcCCcC
Confidence            3567777776654 333322     24789999998874 443221                   125778888887754


Q ss_pred             hhhhhhccc-cccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhh
Q 038494         1030 KYYKEMIGF-RDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEE 1108 (1209)
Q Consensus      1030 ~~~~~~~~~-~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~ 1108 (1209)
                      ..   +..+ ++|+.|++++ +.++.++.       .+++|+.|++++| .+.. +|.    .+++|+.|++++|. ++.
T Consensus       310 ~~---i~~~~~~L~~L~Ls~-N~l~~lp~-------~~~~L~~L~L~~N-~l~~-lp~----~l~~L~~L~L~~N~-l~~  371 (454)
T 1jl5_A          310 RS---LCDLPPSLEELNVSN-NKLIELPA-------LPPRLERLIASFN-HLAE-VPE----LPQNLKQLHVEYNP-LRE  371 (454)
T ss_dssp             SE---ECCCCTTCCEEECCS-SCCSCCCC-------CCTTCCEEECCSS-CCSC-CCC----CCTTCCEEECCSSC-CSS
T ss_pred             Cc---ccCCcCcCCEEECCC-Cccccccc-------cCCcCCEEECCCC-cccc-ccc----hhhhccEEECCCCC-CCc
Confidence            32   2223 5888888887 45555422       1478888888776 4554 454    36788888888887 555


Q ss_pred             hhhccc-c-----cccccCCCcccccccccccccccccccccccCCCccCCCCccEEeeecCC
Q 038494         1109 VLRLEE-L-----NADKEHIGPMFPKLSNLRLIDLPKLKRFCNFTGNIIELPELRYLTIENCP 1165 (1209)
Q Consensus      1109 l~~~~~-~-----~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~l~~l~~L~~L~i~~C~ 1165 (1209)
                      ++.... .     +......+..+++|+.|++++ +.++.++.+      .++|+.|.+.+|.
T Consensus       372 l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~-N~l~~~~~i------P~sl~~L~~~~~~  427 (454)
T 1jl5_A          372 FPDIPESVEDLRMNSHLAEVPELPQNLKQLHVET-NPLREFPDI------PESVEDLRMNSER  427 (454)
T ss_dssp             CCCCCTTCCEEECCC------------------------------------------------
T ss_pred             CCCChHHHHhhhhcccccccccccCcCCEEECCC-CcCCccccc------hhhHhheeCcCcc
Confidence            322110 0     000011111235667777766 445544331      2345556665554

>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=99.83  E-value=3.6e-19  Score=212.11  Aligned_cols=141  Identities=21%  Similarity=0.281  Sum_probs=70.9

Q ss_pred             EEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-cc-cccccCCCCCcEEeccCcc
Q 038494          524 ISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SL-SSSLGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       524 l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~l-p~~i~~l~~L~~L~l~~~~  601 (1209)
                      +...+..+..+|.  -.+++++|++++|  .+..+++..|.++++|++|++++|.+. .+ |..+.++++|++|++++|.
T Consensus        15 ~~c~~~~l~~lp~--l~~~l~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~   90 (455)
T 3v47_A           15 AICINRGLHQVPE--LPAHVNYVDLSLN--SIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ   90 (455)
T ss_dssp             EECCSSCCSSCCC--CCTTCCEEECCSS--CCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCT
T ss_pred             cCcCCCCcccCCC--CCCccCEEEecCC--ccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCc
Confidence            4444445555554  1255566666555  234444444555566666666655554 33 3345555555555555555


Q ss_pred             cCCc--ccccCCCCCCEEEccCCCCCc-cchh--ccCCCCCCEEeccCCCCCcccCchh-hcCCCCCcEEECCC
Q 038494          602 LEDV--AAIGQLKKLEILSFRYSDIKQ-LPLE--IGQLAQLQLLDLSNCSSLVVIAPNV-ISKFSRLEELYMGD  669 (1209)
Q Consensus       602 l~~l--~~i~~L~~L~~L~l~~~~~~~-lp~~--i~~L~~L~~L~l~~~~~l~~~~~~~-l~~L~~L~~L~l~~  669 (1209)
                      +..+  ..++++++|++|++++|.++. .|..  +.++++|++|++++ +.+....+.. +.++++|++|++++
T Consensus        91 l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~~l~~L~~L~L~~  163 (455)
T 3v47_A           91 FLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRD-NNIKKIQPASFFLNMRRFHVLDLTF  163 (455)
T ss_dssp             TCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCS-SBCCSCCCCGGGGGCTTCCEEECTT
T ss_pred             cCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCC-CccCccCcccccCCCCcccEEeCCC
Confidence            5444  345555555555555555543 2222  55555555555555 2333332222 44455555555444

>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=99.83  E-value=3.9e-19  Score=211.84  Aligned_cols=186  Identities=22%  Similarity=0.268  Sum_probs=141.7

Q ss_pred             hcCCeEEEEccCCCCccCCC-c-CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPE-R-LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~-~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~  593 (1209)
                      .+.+++++.++++.+..++. . ..+++|++|++.++. ....++...|.++++|++|++++|.++.+ |..++++++|+
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~-~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  106 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQT-PGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLE  106 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCS-TTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCC
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEECcCCc-ccceECcccccccccCCEEeCCCCccCccChhhccCcccCC
Confidence            56789999999999987743 3 479999999999985 33467777789999999999999999876 77899999999


Q ss_pred             EEeccCcccCC--ccc--ccCCCCCCEEEccCCCCCcc-chh-ccCCCCCCEEeccCCCCCcccCchhhcCC--CCCcEE
Q 038494          594 TLCLDWCQLED--VAA--IGQLKKLEILSFRYSDIKQL-PLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKF--SRLEEL  665 (1209)
Q Consensus       594 ~L~l~~~~l~~--l~~--i~~L~~L~~L~l~~~~~~~l-p~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L--~~L~~L  665 (1209)
                      +|++++|.++.  +..  ++++++|++|++++|.+..+ |.. +.++++|++|++++ +.+...++..+.++  .+|+.|
T Consensus       107 ~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~l~~l~~~~L~~L  185 (455)
T 3v47_A          107 VLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTF-NKVKSICEEDLLNFQGKHFTLL  185 (455)
T ss_dssp             EEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTT-CCBSCCCTTTSGGGTTCEEEEE
T ss_pred             EEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCC-CcccccChhhhhcccccccccc
Confidence            99999999987  333  89999999999999999977 544 89999999999999 56666665556655  688899


Q ss_pred             ECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          666 YMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       666 ~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      +++++.................+..+++|+.|+++.+..
T Consensus       186 ~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l  224 (455)
T 3v47_A          186 RLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGF  224 (455)
T ss_dssp             ECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCC
T ss_pred             ccccCcccccchhhccccccccccccceeeeEecCCCcc
Confidence            988764321110000001112234556777888776654

>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=99.82  E-value=1.8e-18  Score=197.81  Aligned_cols=303  Identities=14%  Similarity=0.139  Sum_probs=226.0

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ..++++++.+.++.+..++....+++|++|++.+|  .+..++.  |.++++|++|++++|.++.+| .+..+++|++|+
T Consensus        42 ~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n--~i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L~  116 (347)
T 4fmz_A           42 ELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGN--QITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELY  116 (347)
T ss_dssp             HHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEE
T ss_pred             hcccccEEEEeCCccccchhhhhcCCccEEEccCC--ccccchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCEEE
Confidence            45689999999999999887778999999999998  4555655  789999999999999999986 599999999999


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      +++|.+..+..+..+++|++|++++|.....+..+.++++|++|++++| .+...++  +..+++|++|++++|...   
T Consensus       117 l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~-~~~~~~~--~~~l~~L~~L~l~~n~l~---  190 (347)
T 4fmz_A          117 LNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTP--IANLTDLYSLSLNYNQIE---  190 (347)
T ss_dssp             CTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSS-CCCCCGG--GGGCTTCSEEECTTSCCC---
T ss_pred             CcCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCC-CcCCchh--hccCCCCCEEEccCCccc---
Confidence            9999999986699999999999999955544556999999999999994 5666554  889999999999887421   


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHH
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYG  756 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~  756 (1209)
                             .+..+..+++|+.|+++.+.....+.....                                           
T Consensus       191 -------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-------------------------------------------  220 (347)
T 4fmz_A          191 -------DISPLASLTSLHYFTAYVNQITDITPVANM-------------------------------------------  220 (347)
T ss_dssp             -------CCGGGGGCTTCCEEECCSSCCCCCGGGGGC-------------------------------------------
T ss_pred             -------ccccccCCCccceeecccCCCCCCchhhcC-------------------------------------------
Confidence                   122377888999999988766544321122                                           


Q ss_pred             HHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcc
Q 038494          757 MKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICH  836 (1209)
Q Consensus       757 ~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  836 (1209)
                           ++|+.|++.++.. ..    ++++..+++|++|+++++.. ..+      .....+++|+.|+++++ .++.++ 
T Consensus       221 -----~~L~~L~l~~n~l-~~----~~~~~~l~~L~~L~l~~n~l-~~~------~~~~~l~~L~~L~l~~n-~l~~~~-  281 (347)
T 4fmz_A          221 -----TRLNSLKIGNNKI-TD----LSPLANLSQLTWLEIGTNQI-SDI------NAVKDLTKLKMLNVGSN-QISDIS-  281 (347)
T ss_dssp             -----TTCCEEECCSSCC-CC----CGGGTTCTTCCEEECCSSCC-CCC------GGGTTCTTCCEEECCSS-CCCCCG-
T ss_pred             -----CcCCEEEccCCcc-CC----CcchhcCCCCCEEECCCCcc-CCC------hhHhcCCCcCEEEccCC-ccCCCh-
Confidence                 3445555544321 11    11256788999999988752 222      12456889999999885 565542 


Q ss_pred             cccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCcc
Q 038494          837 SQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVG  916 (1209)
Q Consensus       837 ~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  916 (1209)
                          ....+++|+.|++++|+ ++..+. ..+..+++|+.|++++|+ +....                        ++.
T Consensus       282 ----~~~~l~~L~~L~L~~n~-l~~~~~-~~l~~l~~L~~L~L~~n~-l~~~~------------------------~~~  330 (347)
T 4fmz_A          282 ----VLNNLSQLNSLFLNNNQ-LGNEDM-EVIGGLTNLTTLFLSQNH-ITDIR------------------------PLA  330 (347)
T ss_dssp             ----GGGGCTTCSEEECCSSC-CCGGGH-HHHHTCTTCSEEECCSSS-CCCCG------------------------GGG
T ss_pred             ----hhcCCCCCCEEECcCCc-CCCcCh-hHhhccccCCEEEccCCc-ccccc------------------------Chh
Confidence                22568999999999984 554443 456789999999999985 33221                        135


Q ss_pred             CccccceEeecccc
Q 038494          917 IPSSLVNLKVSKCQ  930 (1209)
Q Consensus       917 ~~~sL~~L~l~~c~  930 (1209)
                      .+++|+.|++++|+
T Consensus       331 ~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          331 SLSKMDSADFANQV  344 (347)
T ss_dssp             GCTTCSEESSSCC-
T ss_pred             hhhccceeehhhhc
Confidence            56778888877764

>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=99.81  E-value=1.7e-19  Score=212.38  Aligned_cols=145  Identities=17%  Similarity=0.137  Sum_probs=70.4

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-cccccccCCCCC-------------cEEeccCcccCC
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINL-------------QTLCLDWCQLED  604 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~l~~L-------------~~L~l~~~~l~~  604 (1209)
                      ..++|++|.++++.  ...+|.. ++++++|++|++++|.+. .+|.+++++.+|             ++|++++|.++.
T Consensus         9 ~~~~L~~L~l~~n~--l~~iP~~-i~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~   85 (454)
T 1jl5_A            9 SNTFLQEPLRHSSN--LTEMPVE-AENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSS   85 (454)
T ss_dssp             ----------------------------CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCCSC
T ss_pred             ccccchhhhcccCc--hhhCChh-HhcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCCcccc
Confidence            34667777776663  3556654 477777777777777776 677777777664             666666666655


Q ss_pred             cccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccc
Q 038494          605 VAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNAS  684 (1209)
Q Consensus       605 l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~  684 (1209)
                      ++.+  .++|++|++++|.++.+|..   +.+|++|++++ +.++.++..    .++|++|++++|...         . 
T Consensus        86 lp~~--~~~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~-n~l~~l~~~----~~~L~~L~L~~n~l~---------~-  145 (454)
T 1jl5_A           86 LPEL--PPHLESLVASCNSLTELPEL---PQSLKSLLVDN-NNLKALSDL----PPLLEYLGVSNNQLE---------K-  145 (454)
T ss_dssp             CCSC--CTTCSEEECCSSCCSSCCCC---CTTCCEEECCS-SCCSCCCSC----CTTCCEEECCSSCCS---------S-
T ss_pred             CCCC--cCCCCEEEccCCcCCccccc---cCCCcEEECCC-CccCcccCC----CCCCCEEECcCCCCC---------C-
Confidence            5332  35666666666666666542   35666666666 344443321    146666666654321         0 


Q ss_pred             hhhhCCCCCCCEEEeeccCCCC
Q 038494          685 LAELKGLSKLTTLEIQVQDAQM  706 (1209)
Q Consensus       685 l~~L~~l~~L~~L~l~~~~~~~  706 (1209)
                      +..+..+++|+.|+++.+....
T Consensus       146 lp~~~~l~~L~~L~l~~N~l~~  167 (454)
T 1jl5_A          146 LPELQNSSFLKIIDVDNNSLKK  167 (454)
T ss_dssp             CCCCTTCTTCCEEECCSSCCSC
T ss_pred             CcccCCCCCCCEEECCCCcCcc
Confidence            1135566666666666655443

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

Probab=99.81  E-value=1.5e-18  Score=201.90  Aligned_cols=307  Identities=13%  Similarity=0.155  Sum_probs=218.0

Q ss_pred             cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCC
Q 038494          537 RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKK  613 (1209)
Q Consensus       537 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~  613 (1209)
                      ...+++++.|++.++  .+..+|..+|.++++|++|++++|.++.+|. .+..+++|++|++++|.+..+  ..++++++
T Consensus        41 ~~~l~~l~~l~l~~~--~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  118 (390)
T 3o6n_A           41 DITLNNQKIVTFKNS--TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  118 (390)
T ss_dssp             SGGGCCCSEEEEESC--EESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccccCCceEEEecCC--chhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCC
Confidence            345788899988877  5777888888889999999999998887764 788899999999999988877  55788999


Q ss_pred             CCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCC
Q 038494          614 LEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLS  692 (1209)
Q Consensus       614 L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~  692 (1209)
                      |++|++++|.++.+|.. +.++++|++|++++ +.+..+++..++++++|++|+++++....           ..+..++
T Consensus       119 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-----------~~~~~l~  186 (390)
T 3o6n_A          119 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSN-NNLERIEDDTFQATTSLQNLQLSSNRLTH-----------VDLSLIP  186 (390)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTSSCTTCCEEECCSSCCSB-----------CCGGGCT
T ss_pred             CCEEECCCCccCcCCHHHhcCCCCCcEEECCC-CccCccChhhccCCCCCCEEECCCCcCCc-----------ccccccc
Confidence            99999999988888877 48889999999988 56777777668888999999988764311           0245667


Q ss_pred             CCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccc
Q 038494          693 KLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEEL  772 (1209)
Q Consensus       693 ~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  772 (1209)
                      +|+.|+++.+....++   ....|+.|.+.......             +..              ...++|+.|++.+.
T Consensus       187 ~L~~L~l~~n~l~~~~---~~~~L~~L~l~~n~l~~-------------~~~--------------~~~~~L~~L~l~~n  236 (390)
T 3o6n_A          187 SLFHANVSYNLLSTLA---IPIAVEELDASHNSINV-------------VRG--------------PVNVELTILKLQHN  236 (390)
T ss_dssp             TCSEEECCSSCCSEEE---CCSSCSEEECCSSCCCE-------------EEC--------------CCCSSCCEEECCSS
T ss_pred             ccceeecccccccccC---CCCcceEEECCCCeeee-------------ccc--------------cccccccEEECCCC
Confidence            8888888877654332   22345555543221100             000              01246777777664


Q ss_pred             cccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEE
Q 038494          773 TGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIE  852 (1209)
Q Consensus       773 ~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~  852 (1209)
                      ... .    .+.+..+++|++|+++++......+     .....+++|+.|++++ ++++.++...    ..+|+|+.|+
T Consensus       237 ~l~-~----~~~l~~l~~L~~L~Ls~n~l~~~~~-----~~~~~l~~L~~L~L~~-n~l~~~~~~~----~~l~~L~~L~  301 (390)
T 3o6n_A          237 NLT-D----TAWLLNYPGLVEVDLSYNELEKIMY-----HPFVKMQRLERLYISN-NRLVALNLYG----QPIPTLKVLD  301 (390)
T ss_dssp             CCC-C----CGGGGGCTTCSEEECCSSCCCEEES-----GGGTTCSSCCEEECCS-SCCCEEECSS----SCCTTCCEEE
T ss_pred             CCc-c----cHHHcCCCCccEEECCCCcCCCcCh-----hHccccccCCEEECCC-CcCcccCccc----CCCCCCCEEE
Confidence            322 1    1335788999999999986332211     1234589999999998 4666653321    4589999999


Q ss_pred             EecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccc
Q 038494          853 VESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQK  931 (1209)
Q Consensus       853 l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~  931 (1209)
                      +++| .++.+|.  .+..+++|+.|++++|. +..+.                         +..+++|+.|++++++-
T Consensus       302 L~~n-~l~~~~~--~~~~l~~L~~L~L~~N~-i~~~~-------------------------~~~~~~L~~L~l~~N~~  351 (390)
T 3o6n_A          302 LSHN-HLLHVER--NQPQFDRLENLYLDHNS-IVTLK-------------------------LSTHHTLKNLTLSHNDW  351 (390)
T ss_dssp             CCSS-CCCCCGG--GHHHHTTCSEEECCSSC-CCCCC-------------------------CCTTCCCSEEECCSSCE
T ss_pred             CCCC-cceecCc--cccccCcCCEEECCCCc-cceeC-------------------------chhhccCCEEEcCCCCc
Confidence            9998 6777765  45679999999999874 32221                         24567888899888753

>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=99.81  E-value=9.3e-19  Score=209.66  Aligned_cols=171  Identities=22%  Similarity=0.248  Sum_probs=121.1

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  600 (1209)
                      +.+...+..+..+|... .+++++|++++|  .+..++...|.++++|++|+|++|.++.+ |..++++++|++|++++|
T Consensus        14 ~~v~c~~~~l~~ip~~~-~~~l~~L~L~~n--~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n   90 (477)
T 2id5_A           14 RAVLCHRKRFVAVPEGI-PTETRLLDLGKN--RIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN   90 (477)
T ss_dssp             TEEECCSCCCSSCCSCC-CTTCSEEECCSS--CCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCcCCCCC-CCCCcEEECCCC--ccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC
Confidence            34555666677777644 367888888877  46666666678888888888888888765 667888888888888888


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccc
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      .++.+  ..+.++++|++|++++|.+..+ |..+.++++|++|++++ +.+..+++..+.++++|++|++++|...    
T Consensus        91 ~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~----  165 (477)
T 2id5_A           91 RLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD-NDLVYISHRAFSGLNSLEQLTLEKCNLT----  165 (477)
T ss_dssp             CCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECC-TTCCEECTTSSTTCTTCCEEEEESCCCS----
T ss_pred             cCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCC-CccceeChhhccCCCCCCEEECCCCcCc----
Confidence            88777  3467888888888888877755 45677888888888887 5566666666777888888887765321    


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                          ......+..+++|+.|+++.+.+
T Consensus       166 ----~~~~~~l~~l~~L~~L~l~~n~i  188 (477)
T 2id5_A          166 ----SIPTEALSHLHGLIVLRLRHLNI  188 (477)
T ss_dssp             ----SCCHHHHTTCTTCCEEEEESCCC
T ss_pred             ----ccChhHhcccCCCcEEeCCCCcC
Confidence                01123356667777777765543

>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=99.79  E-value=4.4e-18  Score=209.09  Aligned_cols=307  Identities=14%  Similarity=0.160  Sum_probs=218.9

Q ss_pred             cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCC
Q 038494          537 RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKK  613 (1209)
Q Consensus       537 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~  613 (1209)
                      ...+++++.|.+.++  ....+|..+|.++++|++|+|++|.++.+|. .|+.+++|++|++++|.+..+  ..++++++
T Consensus        47 ~l~l~~l~~l~l~~~--~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  124 (597)
T 3oja_B           47 DITLNNQKIVTFKNS--TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL  124 (597)
T ss_dssp             SGGGCCCSEEEESSC--EESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cccCCCceEEEeeCC--CCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCC
Confidence            345788888888877  5777888888889999999999999887764 788999999999999998877  45788999


Q ss_pred             CCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCC
Q 038494          614 LEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLS  692 (1209)
Q Consensus       614 L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~  692 (1209)
                      |++|++++|.++.+|.. ++++++|++|++++ +.+..+++..++++++|++|++++|....           ..+..++
T Consensus       125 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----------~~~~~l~  192 (597)
T 3oja_B          125 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSN-NNLERIEDDTFQATTSLQNLQLSSNRLTH-----------VDLSLIP  192 (597)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEECTTSCCSB-----------CCGGGCT
T ss_pred             CCEEEeeCCCCCCCCHHHhccCCCCCEEEeeC-CcCCCCChhhhhcCCcCcEEECcCCCCCC-----------cChhhhh
Confidence            99999999988888877 48899999999998 56777777778889999999988764311           0245567


Q ss_pred             CCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccc
Q 038494          693 KLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEEL  772 (1209)
Q Consensus       693 ~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  772 (1209)
                      +|+.|+++.+....++   ....|+.|.+..+....             +..              ...++|+.|.+.++
T Consensus       193 ~L~~L~l~~n~l~~l~---~~~~L~~L~ls~n~l~~-------------~~~--------------~~~~~L~~L~L~~n  242 (597)
T 3oja_B          193 SLFHANVSYNLLSTLA---IPIAVEELDASHNSINV-------------VRG--------------PVNVELTILKLQHN  242 (597)
T ss_dssp             TCSEEECCSSCCSEEE---CCTTCSEEECCSSCCCE-------------EEC--------------SCCSCCCEEECCSS
T ss_pred             hhhhhhcccCcccccc---CCchhheeeccCCcccc-------------ccc--------------ccCCCCCEEECCCC
Confidence            8888888877554322   22345555543221100             000              01146777777664


Q ss_pred             cccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEE
Q 038494          773 TGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIE  852 (1209)
Q Consensus       773 ~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~  852 (1209)
                      ....     ...+..+++|+.|+++++......+.     ....+++|+.|++++ +.++.++...    +.+|+|+.|+
T Consensus       243 ~l~~-----~~~l~~l~~L~~L~Ls~N~l~~~~~~-----~~~~l~~L~~L~Ls~-N~l~~l~~~~----~~l~~L~~L~  307 (597)
T 3oja_B          243 NLTD-----TAWLLNYPGLVEVDLSYNELEKIMYH-----PFVKMQRLERLYISN-NRLVALNLYG----QPIPTLKVLD  307 (597)
T ss_dssp             CCCC-----CGGGGGCTTCSEEECCSSCCCEEESG-----GGTTCSSCCEEECTT-SCCCEEECSS----SCCTTCCEEE
T ss_pred             CCCC-----ChhhccCCCCCEEECCCCccCCCCHH-----HhcCccCCCEEECCC-CCCCCCCccc----ccCCCCcEEE
Confidence            3221     23367899999999999863322111     234589999999998 4666653321    4589999999


Q ss_pred             EecCCCccccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccc
Q 038494          853 VESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQK  931 (1209)
Q Consensus       853 l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~  931 (1209)
                      +++| .++.+|.  .+..+++|+.|++++|. +..+                         .+..+++|+.|++++|+-
T Consensus       308 Ls~N-~l~~i~~--~~~~l~~L~~L~L~~N~-l~~~-------------------------~~~~~~~L~~L~l~~N~~  357 (597)
T 3oja_B          308 LSHN-HLLHVER--NQPQFDRLENLYLDHNS-IVTL-------------------------KLSTHHTLKNLTLSHNDW  357 (597)
T ss_dssp             CCSS-CCCCCGG--GHHHHTTCSEEECCSSC-CCCC-------------------------CCCTTCCCSEEECCSSCE
T ss_pred             CCCC-CCCccCc--ccccCCCCCEEECCCCC-CCCc-------------------------ChhhcCCCCEEEeeCCCC
Confidence            9998 5667765  45789999999999974 2221                         135568899999998763

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

Probab=99.78  E-value=4.8e-18  Score=197.54  Aligned_cols=236  Identities=14%  Similarity=0.144  Sum_probs=163.3

Q ss_pred             CCCCCcEEEecCccccccccc-ccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEE
Q 038494          565 GTEDLKVLSLSGIHFSSLSSS-LGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLL  640 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L  640 (1209)
                      .+.++++|+++++.++.+|.. +..+++|++|++++|.++.+  ..+.++++|++|++++|.+..+|+ .++++++|++|
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEE
Confidence            468999999999999999875 68999999999999999888  589999999999999999998865 48999999999


Q ss_pred             eccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEE
Q 038494          641 DLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYR  720 (1209)
Q Consensus       641 ~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~  720 (1209)
                      ++++ +.++.+++..++++++|++|+++++...        ......+..+++|+.|+++.+.+..++. ..+       
T Consensus       123 ~L~~-n~l~~l~~~~~~~l~~L~~L~L~~n~l~--------~~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~l-------  185 (390)
T 3o6n_A          123 VLER-NDLSSLPRGIFHNTPKLTTLSMSNNNLE--------RIEDDTFQATTSLQNLQLSSNRLTHVDL-SLI-------  185 (390)
T ss_dssp             ECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCC--------BCCTTTTSSCTTCCEEECCSSCCSBCCG-GGC-------
T ss_pred             ECCC-CccCcCCHHHhcCCCCCcEEECCCCccC--------ccChhhccCCCCCCEEECCCCcCCcccc-ccc-------
Confidence            9999 6788888876789999999999887431        1112347788999999998876654321 112       


Q ss_pred             EEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEeccc
Q 038494          721 ICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCS  800 (1209)
Q Consensus       721 l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~  800 (1209)
                                                               ++|+.+.+.... ..    .   +...++|++|+++++.
T Consensus       186 -----------------------------------------~~L~~L~l~~n~-l~----~---~~~~~~L~~L~l~~n~  216 (390)
T 3o6n_A          186 -----------------------------------------PSLFHANVSYNL-LS----T---LAIPIAVEELDASHNS  216 (390)
T ss_dssp             -----------------------------------------TTCSEEECCSSC-CS----E---EECCSSCSEEECCSSC
T ss_pred             -----------------------------------------cccceeeccccc-cc----c---cCCCCcceEEECCCCe
Confidence                                                     233333332211 00    0   1223467777777654


Q ss_pred             CceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEe
Q 038494          801 EILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVA  880 (1209)
Q Consensus       801 ~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~  880 (1209)
                      . ..++       ...+++|+.|++.++ .++..     +..+.+++|++|+++++ .++.+++ ..+..+++|+.|+++
T Consensus       217 l-~~~~-------~~~~~~L~~L~l~~n-~l~~~-----~~l~~l~~L~~L~Ls~n-~l~~~~~-~~~~~l~~L~~L~L~  280 (390)
T 3o6n_A          217 I-NVVR-------GPVNVELTILKLQHN-NLTDT-----AWLLNYPGLVEVDLSYN-ELEKIMY-HPFVKMQRLERLYIS  280 (390)
T ss_dssp             C-CEEE-------CCCCSSCCEEECCSS-CCCCC-----GGGGGCTTCSEEECCSS-CCCEEES-GGGTTCSSCCEEECC
T ss_pred             e-eecc-------ccccccccEEECCCC-CCccc-----HHHcCCCCccEEECCCC-cCCCcCh-hHccccccCCEEECC
Confidence            2 2221       123567777777763 34432     11245777777777776 3444432 244567777777777


Q ss_pred             cc
Q 038494          881 SC  882 (1209)
Q Consensus       881 ~c  882 (1209)
                      +|
T Consensus       281 ~n  282 (390)
T 3o6n_A          281 NN  282 (390)
T ss_dssp             SS
T ss_pred             CC
Confidence            65

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

Probab=99.76  E-value=1.8e-17  Score=198.43  Aligned_cols=295  Identities=17%  Similarity=0.130  Sum_probs=218.7

Q ss_pred             hhcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L  592 (1209)
                      ..+..++++.++++.+..++.  ...+++|++|++.+|  .+..+.+..|.++++|++|+|++|.++.+|. .+.++++|
T Consensus        29 ~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n--~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  106 (477)
T 2id5_A           29 GIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN--IVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNL  106 (477)
T ss_dssp             CCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS--CCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTC
T ss_pred             CCCCCCcEEECCCCccceECHhHccCCCCCCEEECCCC--ccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCC
Confidence            356789999999999988754  347999999999998  4667767778999999999999999999886 57899999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      ++|++++|.+..+  ..+.++++|++|++++|.+..+ |..+.++++|++|++++ +.++.+++..+.++++|+.|++.+
T Consensus       107 ~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~l~~l~~L~~L~l~~  185 (477)
T 2id5_A          107 TKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK-CNLTSIPTEALSHLHGLIVLRLRH  185 (477)
T ss_dssp             CEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEES-CCCSSCCHHHHTTCTTCCEEEEES
T ss_pred             CEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCC-CcCcccChhHhcccCCCcEEeCCC
Confidence            9999999999887  6789999999999999999866 45789999999999999 578888887799999999999988


Q ss_pred             CCCccccccCCCccchhhhCCCCCCCEEEeeccCCC-CCCcc-cccCCCCeEEEEEcccCccccCCCCCccEEEEecCCC
Q 038494          670 SFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ-MLPQD-LVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLEN  747 (1209)
Q Consensus       670 ~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~-~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~  747 (1209)
                      +....        .....+..+++|+.|+++.+... .++.. ...                                  
T Consensus       186 n~i~~--------~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~----------------------------------  223 (477)
T 2id5_A          186 LNINA--------IRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYG----------------------------------  223 (477)
T ss_dssp             CCCCE--------ECTTCSCSCTTCCEEEEECCTTCCEECTTTTTT----------------------------------
T ss_pred             CcCcE--------eChhhcccCcccceeeCCCCccccccCcccccC----------------------------------
Confidence            64311        11234677889999999875432 11111 011                                  


Q ss_pred             cchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEeccc
Q 038494          748 VSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYK  827 (1209)
Q Consensus       748 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~  827 (1209)
                                    .+|+.|++.++. ...+...  .+..+++|++|+++++.. ..+..    .....+++|+.|++++
T Consensus       224 --------------~~L~~L~l~~n~-l~~~~~~--~~~~l~~L~~L~Ls~n~l-~~~~~----~~~~~l~~L~~L~L~~  281 (477)
T 2id5_A          224 --------------LNLTSLSITHCN-LTAVPYL--AVRHLVYLRFLNLSYNPI-STIEG----SMLHELLRLQEIQLVG  281 (477)
T ss_dssp             --------------CCCSEEEEESSC-CCSCCHH--HHTTCTTCCEEECCSSCC-CEECT----TSCTTCTTCCEEECCS
T ss_pred             --------------ccccEEECcCCc-ccccCHH--HhcCccccCeeECCCCcC-CccCh----hhccccccCCEEECCC
Confidence                          134444444322 1111111  146678899999988762 22221    1234578899999988


Q ss_pred             ccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccc
Q 038494          828 LINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       828 ~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~  883 (1209)
                       ++++.+....+   ..+++|+.|+++++ .++.++. ..+..+++|+.|++++++
T Consensus       282 -n~l~~~~~~~~---~~l~~L~~L~L~~N-~l~~~~~-~~~~~l~~L~~L~l~~N~  331 (477)
T 2id5_A          282 -GQLAVVEPYAF---RGLNYLRVLNVSGN-QLTTLEE-SVFHSVGNLETLILDSNP  331 (477)
T ss_dssp             -SCCSEECTTTB---TTCTTCCEEECCSS-CCSCCCG-GGBSCGGGCCEEECCSSC
T ss_pred             -CccceECHHHh---cCcccCCEEECCCC-cCceeCH-hHcCCCcccCEEEccCCC
Confidence             45655433333   45899999999997 6777765 345678999999998764

>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=99.74  E-value=1.8e-17  Score=203.54  Aligned_cols=301  Identities=15%  Similarity=0.142  Sum_probs=226.2

Q ss_pred             cCCeEEEEccCCCCccCCCcC--CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcE
Q 038494          518 QKGAIAISIPYGDIQELPERL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQT  594 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~  594 (1209)
                      ..+++.+.+.++.+..+|...  .+++|++|++.+|  .+..++...|..+++|++|+|++|.++.+|. .++.+++|++
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n--~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  127 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL--QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  127 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTS--CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCC--CCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCE
Confidence            467889999999998888753  6899999999998  4677777778999999999999999998765 5799999999


Q ss_pred             EeccCcccCCc-c-cccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          595 LCLDWCQLEDV-A-AIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       595 L~l~~~~l~~l-~-~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      |++++|.+..+ . .++++++|++|++++|.+..+|+ .++++++|++|++++ +.+..++   ++.+++|+.|+++++.
T Consensus       128 L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~---~~~l~~L~~L~l~~n~  203 (597)
T 3oja_B          128 LVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSS-NRLTHVD---LSLIPSLFHANVSYNL  203 (597)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTT-SCCSBCC---GGGCTTCSEEECCSSC
T ss_pred             EEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcC-CCCCCcC---hhhhhhhhhhhcccCc
Confidence            99999999988 3 36999999999999999997755 689999999999999 5676664   5678999999998764


Q ss_pred             CccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchh
Q 038494          672 PQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTL  751 (1209)
Q Consensus       672 ~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~  751 (1209)
                      .             ..+....+|+.|+++.+.+..++... ..+|+.|.+..+....                      .
T Consensus       204 l-------------~~l~~~~~L~~L~ls~n~l~~~~~~~-~~~L~~L~L~~n~l~~----------------------~  247 (597)
T 3oja_B          204 L-------------STLAIPIAVEELDASHNSINVVRGPV-NVELTILKLQHNNLTD----------------------T  247 (597)
T ss_dssp             C-------------SEEECCTTCSEEECCSSCCCEEECSC-CSCCCEEECCSSCCCC----------------------C
T ss_pred             c-------------ccccCCchhheeeccCCccccccccc-CCCCCEEECCCCCCCC----------------------C
Confidence            2             23455668999999988876555432 2466666654222110                      0


Q ss_pred             hhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEeccccccc
Q 038494          752 LENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINL  831 (1209)
Q Consensus       752 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  831 (1209)
                          .....+++|+.|++.+.......+   ..++.+++|+.|+++++.. ..++.     ....+|+|+.|+++++ .+
T Consensus       248 ----~~l~~l~~L~~L~Ls~N~l~~~~~---~~~~~l~~L~~L~Ls~N~l-~~l~~-----~~~~l~~L~~L~Ls~N-~l  313 (597)
T 3oja_B          248 ----AWLLNYPGLVEVDLSYNELEKIMY---HPFVKMQRLERLYISNNRL-VALNL-----YGQPIPTLKVLDLSHN-HL  313 (597)
T ss_dssp             ----GGGGGCTTCSEEECCSSCCCEEES---GGGTTCSSCCEEECTTSCC-CEEEC-----SSSCCTTCCEEECCSS-CC
T ss_pred             ----hhhccCCCCCEEECCCCccCCCCH---HHhcCccCCCEEECCCCCC-CCCCc-----ccccCCCCcEEECCCC-CC
Confidence                001124678888887654322222   2257899999999999753 33321     2245899999999995 55


Q ss_pred             chhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccc
Q 038494          832 EAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       832 ~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~  883 (1209)
                      ..++..    .+.+++|+.|++++|+ ++.++    +..+++|+.|++++++
T Consensus       314 ~~i~~~----~~~l~~L~~L~L~~N~-l~~~~----~~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          314 LHVERN----QPQFDRLENLYLDHNS-IVTLK----LSTHHTLKNLTLSHND  356 (597)
T ss_dssp             CCCGGG----HHHHTTCSEEECCSSC-CCCCC----CCTTCCCSEEECCSSC
T ss_pred             CccCcc----cccCCCCCEEECCCCC-CCCcC----hhhcCCCCEEEeeCCC
Confidence            554322    2468999999999984 66664    3568999999999875

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.74  E-value=2e-18  Score=213.39  Aligned_cols=152  Identities=17%  Similarity=0.165  Sum_probs=79.3

Q ss_pred             CCCCccEEEeccCCCcc--cc-----------cChhhhcCCCCCcEEEecCccccc-ccccccCC--CCCcEEeccCcc-
Q 038494          539 ECPQLKLLLLLANGDSY--LE-----------ISHLFFEGTEDLKVLSLSGIHFSS-LSSSLGHL--INLQTLCLDWCQ-  601 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~--~~-----------~~~~~~~~l~~Lr~L~L~~~~i~~-lp~~i~~l--~~L~~L~l~~~~-  601 (1209)
                      .+++|++|++.++....  ..           ....++..+++|++|+|+++.++. .+..+...  .+|++|++++|. 
T Consensus        71 ~~~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~  150 (592)
T 3ogk_B           71 RFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSG  150 (592)
T ss_dssp             HCTTCSEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEE
T ss_pred             hCCCCeEEEecCCcchhhcccccccccccchHHHHHHHhhCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCC
Confidence            46778888886642100  00           111223366777777777776652 23334442  347777777765 


Q ss_pred             cCC--c-ccccCCCCCCEEEccCCCCCc-----cchhccCCCCCCEEeccCCCCCcccC----chhhcCCCCCcEEECCC
Q 038494          602 LED--V-AAIGQLKKLEILSFRYSDIKQ-----LPLEIGQLAQLQLLDLSNCSSLVVIA----PNVISKFSRLEELYMGD  669 (1209)
Q Consensus       602 l~~--l-~~i~~L~~L~~L~l~~~~~~~-----lp~~i~~L~~L~~L~l~~~~~l~~~~----~~~l~~L~~L~~L~l~~  669 (1209)
                      +..  + ....++++|++|++++|.+..     ++.....+++|++|+++++ .++.+.    +..+.++++|++|++++
T Consensus       151 ~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n-~~~~~~~~~l~~~~~~~~~L~~L~L~~  229 (592)
T 3ogk_B          151 FTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMT-EFAKISPKDLETIARNCRSLVSVKVGD  229 (592)
T ss_dssp             EEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTC-CCSSCCHHHHHHHHHHCTTCCEEECSS
T ss_pred             cCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeecc-CCCccCHHHHHHHHhhCCCCcEEeccC
Confidence            211  1 223466777777777775432     2333455677777777663 333111    12234566777777665


Q ss_pred             CCCccccccCCCccchhhhCCCCCCCEEEee
Q 038494          670 SFPQWDKVEGGSNASLAELKGLSKLTTLEIQ  700 (1209)
Q Consensus       670 ~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~  700 (1209)
                      +..         ......+..+++|+.|+++
T Consensus       230 ~~~---------~~l~~~~~~~~~L~~L~l~  251 (592)
T 3ogk_B          230 FEI---------LELVGFFKAAANLEEFCGG  251 (592)
T ss_dssp             CBG---------GGGHHHHHHCTTCCEEEEC
T ss_pred             ccH---------HHHHHHHhhhhHHHhhccc
Confidence            421         1122334555666666654

>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=99.73  E-value=2.4e-17  Score=185.71  Aligned_cols=222  Identities=19%  Similarity=0.251  Sum_probs=152.6

Q ss_pred             CCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEecc
Q 038494          565 GTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLS  643 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~  643 (1209)
                      ...++++|+|+++.++.+|..++++++|++|++++|.+..+ ..++++++|++|++++|.++.+|..++++++|++|+++
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~  158 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIR  158 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEE
T ss_pred             cccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECC
Confidence            45778888888888888888888888888888888888877 67888888999999888888888888888899999988


Q ss_pred             CCCCCcccCchhhcC---------CCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccC
Q 038494          644 NCSSLVVIAPNVISK---------FSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFV  714 (1209)
Q Consensus       644 ~~~~l~~~~~~~l~~---------L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~  714 (1209)
                      +|+....+|.. ++.         +++|++|++++|...         .....+..+++|+.|+++.+.+..++      
T Consensus       159 ~n~~~~~~p~~-~~~~~~~~~~~~l~~L~~L~L~~n~l~---------~lp~~l~~l~~L~~L~L~~N~l~~l~------  222 (328)
T 4fcg_A          159 ACPELTELPEP-LASTDASGEHQGLVNLQSLRLEWTGIR---------SLPASIANLQNLKSLKIRNSPLSALG------  222 (328)
T ss_dssp             EETTCCCCCSC-SEEEC-CCCEEESTTCCEEEEEEECCC---------CCCGGGGGCTTCCEEEEESSCCCCCC------
T ss_pred             CCCCccccChh-HhhccchhhhccCCCCCEEECcCCCcC---------cchHhhcCCCCCCEEEccCCCCCcCc------
Confidence            87766666543 332         444444444433210         11122333444444444433222111      


Q ss_pred             CCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEE
Q 038494          715 ELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHL  794 (1209)
Q Consensus       715 ~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L  794 (1209)
                                                                                       .   .++.+++|++|
T Consensus       223 -----------------------------------------------------------------~---~l~~l~~L~~L  234 (328)
T 4fcg_A          223 -----------------------------------------------------------------P---AIHHLPKLEEL  234 (328)
T ss_dssp             -----------------------------------------------------------------G---GGGGCTTCCEE
T ss_pred             -----------------------------------------------------------------h---hhccCCCCCEE
Confidence                                                                             1   13456778888


Q ss_pred             EEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccc
Q 038494          795 WVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRL  874 (1209)
Q Consensus       795 ~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L  874 (1209)
                      ++++|.....++.     ....+++|+.|++++|+....++..    .+.+++|+.|+|++|+.+..+|.  .+.++++|
T Consensus       235 ~Ls~n~~~~~~p~-----~~~~l~~L~~L~L~~n~~~~~~p~~----~~~l~~L~~L~L~~n~~~~~iP~--~l~~L~~L  303 (328)
T 4fcg_A          235 DLRGCTALRNYPP-----IFGGRAPLKRLILKDCSNLLTLPLD----IHRLTQLEKLDLRGCVNLSRLPS--LIAQLPAN  303 (328)
T ss_dssp             ECTTCTTCCBCCC-----CTTCCCCCCEEECTTCTTCCBCCTT----GGGCTTCCEEECTTCTTCCCCCG--GGGGSCTT
T ss_pred             ECcCCcchhhhHH-----HhcCCCCCCEEECCCCCchhhcchh----hhcCCCCCEEeCCCCCchhhccH--HHhhccCc
Confidence            8887765544322     2345788888888887666554322    25689999999999998888886  67889999


Q ss_pred             cEEEEec
Q 038494          875 QKVKVAS  881 (1209)
Q Consensus       875 ~~L~l~~  881 (1209)
                      +.+.+..
T Consensus       304 ~~l~l~~  310 (328)
T 4fcg_A          304 CIILVPP  310 (328)
T ss_dssp             CEEECCG
T ss_pred             eEEeCCH
Confidence            9998875

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.73  E-value=1.6e-18  Score=214.24  Aligned_cols=154  Identities=18%  Similarity=0.189  Sum_probs=105.6

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcC-CC-CCcEEEecCcc-cc--cccccccCCCCCcEEeccCcccCCc------cc
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEG-TE-DLKVLSLSGIH-FS--SLSSSLGHLINLQTLCLDWCQLEDV------AA  607 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~-l~-~Lr~L~L~~~~-i~--~lp~~i~~l~~L~~L~l~~~~l~~l------~~  607 (1209)
                      .+++|++|++.++.  +.......+.. ++ +|++|++++|. +.  .++..+..+++|++|++++|.+...      ..
T Consensus       110 ~~~~L~~L~L~~~~--i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~  187 (592)
T 3ogk_B          110 NLRQLKSVHFRRMI--VSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHEL  187 (592)
T ss_dssp             HCTTCCEEEEESCB--CCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHH
T ss_pred             hCCCCCeEEeeccE--ecHHHHHHHHHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHH
Confidence            57899999999873  22211122233 34 49999999886 32  3455556899999999999986433      34


Q ss_pred             ccCCCCCCEEEccCCCCC-----ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCc
Q 038494          608 IGQLKKLEILSFRYSDIK-----QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSN  682 (1209)
Q Consensus       608 i~~L~~L~~L~l~~~~~~-----~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~  682 (1209)
                      ..++++|++|++++|.+.     .++..+.++++|++|++++| .+..++ ..+.++++|++|.++.....     ....
T Consensus       188 ~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~-~~~~~~~~L~~L~l~~~~~~-----~~~~  260 (592)
T 3ogk_B          188 AQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF-EILELV-GFFKAAANLEEFCGGSLNED-----IGMP  260 (592)
T ss_dssp             HHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGH-HHHHHCTTCCEEEECBCCCC-----TTCT
T ss_pred             HhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHH-HHHhhhhHHHhhcccccccc-----cchH
Confidence            567899999999999876     44555678999999999994 455565 44888999999998752210     0112


Q ss_pred             cchhhhCCCCCCCEEEeec
Q 038494          683 ASLAELKGLSKLTTLEIQV  701 (1209)
Q Consensus       683 ~~l~~L~~l~~L~~L~l~~  701 (1209)
                      .....+..+++|+.|+++.
T Consensus       261 ~~~~~l~~~~~L~~L~l~~  279 (592)
T 3ogk_B          261 EKYMNLVFPRKLCRLGLSY  279 (592)
T ss_dssp             TSSSCCCCCTTCCEEEETT
T ss_pred             HHHHHhhccccccccCccc
Confidence            2234556667777776644

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

Probab=99.71  E-value=2.2e-16  Score=178.96  Aligned_cols=123  Identities=19%  Similarity=0.279  Sum_probs=95.0

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCcccCCc--ccccCCCCCCEE
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  617 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L  617 (1209)
                      .+++.+++.++.  ...+|..+   .++|++|++++|.++.++ ..+.++++|++|++++|.++.+  ..++++++|++|
T Consensus        33 c~l~~l~~~~~~--l~~ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  107 (332)
T 2ft3_A           33 CHLRVVQCSDLG--LKAVPKEI---SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKL  107 (332)
T ss_dssp             EETTEEECCSSC--CSSCCSCC---CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEE
T ss_pred             ccCCEEECCCCC--ccccCCCC---CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEE
Confidence            367888877763  45566543   367888888888888764 4788888888888888888776  568888888888


Q ss_pred             EccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          618 SFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       618 ~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      ++++|.++.+|..+.  ++|++|++++ +.+..+++..+.++++|++|+++++.
T Consensus       108 ~L~~n~l~~l~~~~~--~~L~~L~l~~-n~i~~~~~~~~~~l~~L~~L~l~~n~  158 (332)
T 2ft3_A          108 YISKNHLVEIPPNLP--SSLVELRIHD-NRIRKVPKGVFSGLRNMNCIEMGGNP  158 (332)
T ss_dssp             ECCSSCCCSCCSSCC--TTCCEEECCS-SCCCCCCSGGGSSCSSCCEEECCSCC
T ss_pred             ECCCCcCCccCcccc--ccCCEEECCC-CccCccCHhHhCCCccCCEEECCCCc
Confidence            888888888887665  7888888888 56777777667888888888887764

>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=99.71  E-value=7.5e-16  Score=174.44  Aligned_cols=152  Identities=19%  Similarity=0.287  Sum_probs=106.0

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEE
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  618 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~  618 (1209)
                      +++.+++.++  ....+|..+   .+.|++|++++|.++.+|. .++++++|++|++++|.++.+  ..++++++|++|+
T Consensus        32 ~l~~l~~~~~--~l~~lp~~~---~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  106 (330)
T 1xku_A           32 HLRVVQCSDL--GLEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY  106 (330)
T ss_dssp             ETTEEECTTS--CCCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCeEEEecCC--CccccCccC---CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEE
Confidence            6677777665  244455433   2577888888888887765 678888888888888887776  5678888888888


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      +++|.++.+|..+.  ++|++|++++ +.+..+++..+.++++|++|+++++....      .......+..+++|+.|+
T Consensus       107 Ls~n~l~~l~~~~~--~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~------~~~~~~~~~~l~~L~~L~  177 (330)
T 1xku_A          107 LSKNQLKELPEKMP--KTLQELRVHE-NEITKVRKSVFNGLNQMIVVELGTNPLKS------SGIENGAFQGMKKLSYIR  177 (330)
T ss_dssp             CCSSCCSBCCSSCC--TTCCEEECCS-SCCCBBCHHHHTTCTTCCEEECCSSCCCG------GGBCTTGGGGCTTCCEEE
T ss_pred             CCCCcCCccChhhc--ccccEEECCC-CcccccCHhHhcCCccccEEECCCCcCCc------cCcChhhccCCCCcCEEE
Confidence            88888888877654  6788888887 56677777667888888888887764311      011233466677788888


Q ss_pred             eeccCCCCC
Q 038494          699 IQVQDAQML  707 (1209)
Q Consensus       699 l~~~~~~~~  707 (1209)
                      ++.+....+
T Consensus       178 l~~n~l~~l  186 (330)
T 1xku_A          178 IADTNITTI  186 (330)
T ss_dssp             CCSSCCCSC
T ss_pred             CCCCccccC
Confidence            776655443

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.69  E-value=1.6e-17  Score=205.28  Aligned_cols=129  Identities=17%  Similarity=0.222  Sum_probs=71.4

Q ss_pred             hcCCCCCcEEEecCccccc-cccccc-CCCCCcEEeccCc-ccCC--c-ccccCCCCCCEEEccCCCCCc-----cchhc
Q 038494          563 FEGTEDLKVLSLSGIHFSS-LSSSLG-HLINLQTLCLDWC-QLED--V-AAIGQLKKLEILSFRYSDIKQ-----LPLEI  631 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~-lp~~i~-~l~~L~~L~l~~~-~l~~--l-~~i~~L~~L~~L~l~~~~~~~-----lp~~i  631 (1209)
                      +..+++|++|+|+++.++. .+..+. .+++|++|++++| .+..  + ..+.++++|++|++++|.++.     ++...
T Consensus       101 ~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~  180 (594)
T 2p1m_B          101 SSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFP  180 (594)
T ss_dssp             HHHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSC
T ss_pred             HHhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHh
Confidence            4566777777777776652 233343 5677777777777 3443  3 233467777777777765442     22223


Q ss_pred             cCCCCCCEEeccCCCCCcccCch----hhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeec
Q 038494          632 GQLAQLQLLDLSNCSSLVVIAPN----VISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQV  701 (1209)
Q Consensus       632 ~~L~~L~~L~l~~~~~l~~~~~~----~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~  701 (1209)
                      ..+++|++|++++|.  ..+...    .+.++++|++|++++|..        .......+..+++|+.|++..
T Consensus       181 ~~~~~L~~L~l~~~~--~~~~~~~l~~l~~~~~~L~~L~L~~~~~--------~~~l~~~~~~~~~L~~L~l~~  244 (594)
T 2p1m_B          181 DTYTSLVSLNISCLA--SEVSFSALERLVTRCPNLKSLKLNRAVP--------LEKLATLLQRAPQLEELGTGG  244 (594)
T ss_dssp             TTCCCCCEEECTTCC--SCCCHHHHHHHHHHCTTCCEEECCTTSC--------HHHHHHHHHHCTTCSEEECSB
T ss_pred             hcCCcCcEEEecccC--CcCCHHHHHHHHHhCCCCcEEecCCCCc--------HHHHHHHHhcCCcceEccccc
Confidence            356677777777654  111111    123457777777766521        011223345566677666543

>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=99.68  E-value=6.1e-16  Score=176.93  Aligned_cols=171  Identities=22%  Similarity=0.260  Sum_probs=137.5

Q ss_pred             EEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCccc
Q 038494          524 ISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQL  602 (1209)
Q Consensus       524 l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l  602 (1209)
                      ....++.+..+|... .++|++|+++++  .+..++...|.++++|++|++++|.++.++ ..++++++|++|++++|.+
T Consensus        36 c~~~~~~l~~iP~~~-~~~L~~L~l~~n--~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l  112 (353)
T 2z80_A           36 CKGSSGSLNSIPSGL-TEAVKSLDLSNN--RITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL  112 (353)
T ss_dssp             EECCSTTCSSCCTTC-CTTCCEEECTTS--CCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             eeCCCCCcccccccc-cccCcEEECCCC--cCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcC
Confidence            566777888888754 368999999988  466777777889999999999999998774 5789999999999999999


Q ss_pred             CCc-c-cccCCCCCCEEEccCCCCCccch--hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          603 EDV-A-AIGQLKKLEILSFRYSDIKQLPL--EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       603 ~~l-~-~i~~L~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +.+ . .++++++|++|++++|.++.+|.  .+.++++|++|++++|..+..+++..++++++|++|+++++...     
T Consensus       113 ~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~-----  187 (353)
T 2z80_A          113 SNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQ-----  187 (353)
T ss_dssp             SSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC-----
T ss_pred             CcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcC-----
Confidence            888 3 48899999999999999998887  68889999999999866777777777888999999998876421     


Q ss_pred             CCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          679 GGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                         ......+..+++|+.|+++.+...
T Consensus       188 ---~~~~~~l~~l~~L~~L~l~~n~l~  211 (353)
T 2z80_A          188 ---SYEPKSLKSIQNVSHLILHMKQHI  211 (353)
T ss_dssp             ---EECTTTTTTCSEEEEEEEECSCST
T ss_pred             ---ccCHHHHhccccCCeecCCCCccc
Confidence               112345667788888888776554

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.68  E-value=3.6e-17  Score=202.19  Aligned_cols=112  Identities=13%  Similarity=0.166  Sum_probs=66.3

Q ss_pred             cChhhhcCCCCCcEEEecCccc-ccc---c------------ccccCCCCCcEEeccCcccCCc--cccc-CCCCCCEEE
Q 038494          558 ISHLFFEGTEDLKVLSLSGIHF-SSL---S------------SSLGHLINLQTLCLDWCQLEDV--AAIG-QLKKLEILS  618 (1209)
Q Consensus       558 ~~~~~~~~l~~Lr~L~L~~~~i-~~l---p------------~~i~~l~~L~~L~l~~~~l~~l--~~i~-~L~~L~~L~  618 (1209)
                      .+...+..+++|+.|+++++.. .++   |            .....+++|++|++++|.+...  ..+. .+++|++|+
T Consensus        57 ~~~~~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~  136 (594)
T 2p1m_B           57 SPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLV  136 (594)
T ss_dssp             CHHHHHHHCTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEE
T ss_pred             CHHHHHhhCCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEe
Confidence            3455678889999999998752 211   1            1134567777777777776543  3443 567777777


Q ss_pred             ccCC-CCCc--cchhccCCCCCCEEeccCCCCCcccCchh----hcCCCCCcEEECCCC
Q 038494          619 FRYS-DIKQ--LPLEIGQLAQLQLLDLSNCSSLVVIAPNV----ISKFSRLEELYMGDS  670 (1209)
Q Consensus       619 l~~~-~~~~--lp~~i~~L~~L~~L~l~~~~~l~~~~~~~----l~~L~~L~~L~l~~~  670 (1209)
                      +++| .+..  ++..+.++++|++|++++|. ++......    ...+++|++|+++.+
T Consensus       137 L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~~~~L~~L~l~~~  194 (594)
T 2p1m_B          137 LSSCEGFSTDGLAAIAATCRNLKELDLRESD-VDDVSGHWLSHFPDTYTSLVSLNISCL  194 (594)
T ss_dssp             EESCEEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCGGGGGGSCTTCCCCCEEECTTC
T ss_pred             CCCcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcchHHHHHHhhcCCcCcEEEeccc
Confidence            7776 4442  44444567777777777653 33222111    224556666666554

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

Probab=99.68  E-value=1.1e-15  Score=173.01  Aligned_cols=287  Identities=15%  Similarity=0.175  Sum_probs=200.2

Q ss_pred             CeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEecc
Q 038494          520 GAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLD  598 (1209)
Q Consensus       520 ~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~  598 (1209)
                      ..+.+.+.++.+..+|... .+++++|++.+|  .+..++...|.++++|++|++++|.++.+ |..++++++|++|+++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n--~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  110 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNN--DISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYIS  110 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC-CTTCCEEECCSS--CCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECC
T ss_pred             cCCEEECCCCCccccCCCC-CCCCeEEECCCC--cCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECC
Confidence            5678888888888888765 479999999998  46677777789999999999999999976 7789999999999999


Q ss_pred             CcccCCc-ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcc--cCchhhcCCCCCcEEECCCCCCcc
Q 038494          599 WCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFPQW  674 (1209)
Q Consensus       599 ~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~--~~~~~l~~L~~L~~L~l~~~~~~~  674 (1209)
                      +|.++.+ ..+.  ++|++|++++|.+..+|.. +.++++|++|++++ +.++.  ..+..+..+ +|++|+++++....
T Consensus       111 ~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~  186 (332)
T 2ft3_A          111 KNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGG-NPLENSGFEPGAFDGL-KLNYLRISEAKLTG  186 (332)
T ss_dssp             SSCCCSCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCS-CCCBGGGSCTTSSCSC-CCSCCBCCSSBCSS
T ss_pred             CCcCCccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCC-CccccCCCCcccccCC-ccCEEECcCCCCCc
Confidence            9999888 4444  8999999999999988764 88999999999999 45542  444556777 89999998764311


Q ss_pred             ccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc-c-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhh
Q 038494          675 DKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD-L-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLL  752 (1209)
Q Consensus       675 ~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~  752 (1209)
                               ....+  .++|+.|+++.+.+..++.. + ..                                       
T Consensus       187 ---------l~~~~--~~~L~~L~l~~n~i~~~~~~~l~~l---------------------------------------  216 (332)
T 2ft3_A          187 ---------IPKDL--PETLNELHLDHNKIQAIELEDLLRY---------------------------------------  216 (332)
T ss_dssp             ---------CCSSS--CSSCSCCBCCSSCCCCCCTTSSTTC---------------------------------------
T ss_pred             ---------cCccc--cCCCCEEECCCCcCCccCHHHhcCC---------------------------------------
Confidence                     11111  15788888888776554321 0 11                                       


Q ss_pred             hHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccc
Q 038494          753 ENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLE  832 (1209)
Q Consensus       753 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  832 (1209)
                               ++|+.|++.+..- .....  ..+..+++|++|+++++. +..++.     ....+++|+.|++++ +.++
T Consensus       217 ---------~~L~~L~L~~N~l-~~~~~--~~~~~l~~L~~L~L~~N~-l~~lp~-----~l~~l~~L~~L~l~~-N~l~  277 (332)
T 2ft3_A          217 ---------SKLYRLGLGHNQI-RMIEN--GSLSFLPTLRELHLDNNK-LSRVPA-----GLPDLKLLQVVYLHT-NNIT  277 (332)
T ss_dssp             ---------TTCSCCBCCSSCC-CCCCT--TGGGGCTTCCEEECCSSC-CCBCCT-----TGGGCTTCCEEECCS-SCCC
T ss_pred             ---------CCCCEEECCCCcC-CcCCh--hHhhCCCCCCEEECCCCc-CeecCh-----hhhcCccCCEEECCC-CCCC
Confidence                     3344454443221 11111  114567889999998875 333322     134578999999988 5677


Q ss_pred             hhcccccccc---cccCCccEEEEecCCCcc-ccccHHHHhhcccccEEEEeccc
Q 038494          833 AICHSQLRED---QFFSNLKIIEVESCDKLK-HLFSFSIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       833 ~~~~~~~~~~---~~l~~L~~L~l~~c~~l~-~l~~~~~~~~l~~L~~L~l~~c~  883 (1209)
                      .+....+...   ..++.|+.|++.+++... .+++ ..+..+++|+.++++++.
T Consensus       278 ~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~-~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          278 KVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQP-ATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             BCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCG-GGGTTBCCSTTEEC----
T ss_pred             ccChhHccccccccccccccceEeecCcccccccCc-ccccccchhhhhhccccc
Confidence            6654433221   226789999999986432 2333 456778999999988764

>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=99.67  E-value=1.8e-15  Score=171.34  Aligned_cols=288  Identities=17%  Similarity=0.182  Sum_probs=195.6

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEec
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCL  597 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l  597 (1209)
                      ...+.+.+.++.+..+|... .+++++|++++|  .+..++...|.++++|++|++++|.++.+ |..++.+++|++|++
T Consensus        31 c~l~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n--~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  107 (330)
T 1xku_A           31 CHLRVVQCSDLGLEKVPKDL-PPDTALLDLQNN--KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL  107 (330)
T ss_dssp             EETTEEECTTSCCCSCCCSC-CTTCCEEECCSS--CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCCeEEEecCCCccccCccC-CCCCeEEECCCC--cCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEEC
Confidence            35678888888888888654 479999999998  46777777789999999999999999977 778999999999999


Q ss_pred             cCcccCCc-ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcc--cCchhhcCCCCCcEEECCCCCCc
Q 038494          598 DWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVV--IAPNVISKFSRLEELYMGDSFPQ  673 (1209)
Q Consensus       598 ~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~--~~~~~l~~L~~L~~L~l~~~~~~  673 (1209)
                      ++|.++.+ ..+.  ++|++|++++|.+..++. .+.++++|++|++++| .+..  ..+..+.++++|++|+++++...
T Consensus       108 s~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~~l~~L~~L~l~~n~l~  184 (330)
T 1xku_A          108 SKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTN-PLKSSGIENGAFQGMKKLSYIRIADTNIT  184 (330)
T ss_dssp             CSSCCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSS-CCCGGGBCTTGGGGCTTCCEEECCSSCCC
T ss_pred             CCCcCCccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCC-cCCccCcChhhccCCCCcCEEECCCCccc
Confidence            99999887 4443  799999999999998765 4889999999999984 4432  44555889999999999887532


Q ss_pred             cccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc-c-ccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchh
Q 038494          674 WDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD-L-VFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTL  751 (1209)
Q Consensus       674 ~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~  751 (1209)
                      .      .   ...+  .++|+.|+++.+.+..++.. + .+                                      
T Consensus       185 ~------l---~~~~--~~~L~~L~l~~n~l~~~~~~~~~~l--------------------------------------  215 (330)
T 1xku_A          185 T------I---PQGL--PPSLTELHLDGNKITKVDAASLKGL--------------------------------------  215 (330)
T ss_dssp             S------C---CSSC--CTTCSEEECTTSCCCEECTGGGTTC--------------------------------------
T ss_pred             c------C---Cccc--cccCCEEECCCCcCCccCHHHhcCC--------------------------------------
Confidence            1      0   1111  26889999988766533211 0 12                                      


Q ss_pred             hhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEeccccccc
Q 038494          752 LENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINL  831 (1209)
Q Consensus       752 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  831 (1209)
                                ++|+.|++.+... .....  ..+..+++|++|+++++. +..++.     ....+++|+.|++++ +.+
T Consensus       216 ----------~~L~~L~Ls~n~l-~~~~~--~~~~~l~~L~~L~L~~N~-l~~lp~-----~l~~l~~L~~L~l~~-N~i  275 (330)
T 1xku_A          216 ----------NNLAKLGLSFNSI-SAVDN--GSLANTPHLRELHLNNNK-LVKVPG-----GLADHKYIQVVYLHN-NNI  275 (330)
T ss_dssp             ----------TTCCEEECCSSCC-CEECT--TTGGGSTTCCEEECCSSC-CSSCCT-----TTTTCSSCCEEECCS-SCC
T ss_pred             ----------CCCCEEECCCCcC-ceeCh--hhccCCCCCCEEECCCCc-CccCCh-----hhccCCCcCEEECCC-CcC
Confidence                      2344444433221 11111  114567788888888875 223321     124577888888887 456


Q ss_pred             chhccccccc---ccccCCccEEEEecCCCcc-ccccHHHHhhcccccEEEEecc
Q 038494          832 EAICHSQLRE---DQFFSNLKIIEVESCDKLK-HLFSFSIARNLLRLQKVKVASC  882 (1209)
Q Consensus       832 ~~~~~~~~~~---~~~l~~L~~L~l~~c~~l~-~l~~~~~~~~l~~L~~L~l~~c  882 (1209)
                      +.+....+..   ....+.|+.|++.+++-.. .+++ ..+..+.+++.++++++
T Consensus       276 ~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~-~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          276 SAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQP-STFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             CCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCG-GGGTTCCCGGGEEC---
T ss_pred             CccChhhcCCcccccccccccceEeecCcccccccCc-cccccccceeEEEeccc
Confidence            6655443321   1235778888888875322 1222 35566778888887764

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

Probab=99.67  E-value=2.4e-15  Score=177.47  Aligned_cols=171  Identities=25%  Similarity=0.306  Sum_probs=135.1

Q ss_pred             eEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccC
Q 038494          521 AIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDW  599 (1209)
Q Consensus       521 ~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~  599 (1209)
                      .+.+...+..+..+|... .++++.|++.+|  .+..++...|.++++|++|+|++|.++.++ ..|.++++|++|++++
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-STNTRLLNLHEN--QIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD  121 (440)
T ss_dssp             SCEEECCSCCCSSCCSCC-CTTCSEEECCSC--CCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCS
T ss_pred             CCEEEeCCCCcCcCCCCC-CCCCcEEEccCC--cCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCC
Confidence            346666777778888655 378899999888  466777777889999999999999998765 5788999999999999


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      |.++.+  ..+..+++|++|++++|.++.+|. .+.++++|++|++++|+.+..++...+.++++|++|++++|...   
T Consensus       122 n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~---  198 (440)
T 3zyj_A          122 NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR---  198 (440)
T ss_dssp             SCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS---
T ss_pred             CcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc---
Confidence            998888  468899999999999998888765 57889999999999888888888777888899999998876431   


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                             .+..+..+++|+.|+++.+.+
T Consensus       199 -------~~~~~~~l~~L~~L~Ls~N~l  219 (440)
T 3zyj_A          199 -------EIPNLTPLIKLDELDLSGNHL  219 (440)
T ss_dssp             -------SCCCCTTCSSCCEEECTTSCC
T ss_pred             -------cccccCCCcccCEEECCCCcc
Confidence                   122356667777777766543

>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=99.66  E-value=2.2e-15  Score=178.48  Aligned_cols=171  Identities=23%  Similarity=0.255  Sum_probs=134.8

Q ss_pred             eEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccC
Q 038494          521 AIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDW  599 (1209)
Q Consensus       521 ~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~  599 (1209)
                      .+.+...+..+..+|... .+++++|++++|  .+..++...|.++++|++|+|++|.++.++ ..+.++.+|++|++++
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-PSNTRYLNLMEN--NIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD  132 (452)
T ss_dssp             SCEEECCSSCCSSCCSCC-CTTCSEEECCSS--CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CcEEEECCCCcCccCCCC-CCCccEEECcCC--cCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCC
Confidence            345666677777777654 378999999888  466677777889999999999999998765 5788999999999999


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      |.++.+  ..+..+++|++|++++|.++.+|. .+.++++|++|++++|+.+..++...+.++++|++|++++|...   
T Consensus       133 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~---  209 (452)
T 3zyi_A          133 NWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIK---  209 (452)
T ss_dssp             SCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCS---
T ss_pred             CcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccc---
Confidence            998887  458889999999999999888865 57889999999999888888888777888899999998876421   


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                             .+..+..+++|+.|+++.+.+
T Consensus       210 -------~~~~~~~l~~L~~L~Ls~N~l  230 (452)
T 3zyi_A          210 -------DMPNLTPLVGLEELEMSGNHF  230 (452)
T ss_dssp             -------SCCCCTTCTTCCEEECTTSCC
T ss_pred             -------ccccccccccccEEECcCCcC
Confidence                   122456667777777766543

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

Probab=99.66  E-value=5.3e-16  Score=173.62  Aligned_cols=148  Identities=18%  Similarity=0.263  Sum_probs=84.5

Q ss_pred             CCeEEEEccCCCCcc---CCCcC-CCCCccEEEecc-CCCcccccChhhhcCCCCCcEEEecCcccc-cccccccCCCCC
Q 038494          519 KGAIAISIPYGDIQE---LPERL-ECPQLKLLLLLA-NGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSSSLGHLINL  592 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~---~~~~~-~~~~L~~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~~i~~l~~L  592 (1209)
                      .+++++.+.++.+..   +|... .+++|++|++.+ +. ....+|. .|.++++|++|++++|.++ .+|..++++++|
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 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINN-LVGPIPP-AIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETT-EESCCCG-GGGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCc-ccccCCh-hHhcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            456666666666552   44332 566666666663 32 2222333 2456666666666666665 556666666666


Q ss_pred             cEEeccCcccCC-c-ccccCCCCCCEEEccCCCCC-ccchhccCCC-CCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          593 QTLCLDWCQLED-V-AAIGQLKKLEILSFRYSDIK-QLPLEIGQLA-QLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       593 ~~L~l~~~~l~~-l-~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~-~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      ++|++++|.+.. + ..++++++|++|++++|.++ .+|..+.++. +|++|++++ +.+....+..++.+. |++|+++
T Consensus       128 ~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~-N~l~~~~~~~~~~l~-L~~L~Ls  205 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR-NRLTGKIPPTFANLN-LAFVDLS  205 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCS-SEEEEECCGGGGGCC-CSEEECC
T ss_pred             CEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcC-CeeeccCChHHhCCc-ccEEECc
Confidence            666666666553 2 55666666666666666665 5566666665 666666666 344433333355554 6666665


Q ss_pred             CC
Q 038494          669 DS  670 (1209)
Q Consensus       669 ~~  670 (1209)
                      +|
T Consensus       206 ~N  207 (313)
T 1ogq_A          206 RN  207 (313)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>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=99.65  E-value=1.6e-15  Score=170.72  Aligned_cols=148  Identities=24%  Similarity=0.453  Sum_probs=110.0

Q ss_pred             cCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          518 QKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ...++.+.+.++.+..+|... .+++|++|++.+|.  +..+|.. +.++++|++|++++|.++.+|..++++++|++|+
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 QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG--LMELPDT-MQQFAGLETLTLARNPLRALPASIASLNRLRELS  156 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSC--CCCCCSC-GGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEE
T ss_pred             ccceeEEEccCCCchhcChhhhhCCCCCEEECCCCC--ccchhHH-HhccCCCCEEECCCCccccCcHHHhcCcCCCEEE
Confidence            456788888888888777654 67888888888774  3456543 4778888888888888888888888888888888


Q ss_pred             ccCccc-CCc-ccc---------cCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEE
Q 038494          597 LDWCQL-EDV-AAI---------GQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEEL  665 (1209)
Q Consensus       597 l~~~~l-~~l-~~i---------~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L  665 (1209)
                      +++|.+ ..+ ..+         .++++|++|++++|.++.+|..++++++|++|++++ +.+..+++. ++++++|++|
T Consensus       157 L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~-N~l~~l~~~-l~~l~~L~~L  234 (328)
T 4fcg_A          157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPA-IHHLPKLEEL  234 (328)
T ss_dssp             EEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEES-SCCCCCCGG-GGGCTTCCEE
T ss_pred             CCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccC-CCCCcCchh-hccCCCCCEE
Confidence            888763 333 333         348888888888888888888888888888888887 456666654 7777888888


Q ss_pred             ECCCC
Q 038494          666 YMGDS  670 (1209)
Q Consensus       666 ~l~~~  670 (1209)
                      ++++|
T Consensus       235 ~Ls~n  239 (328)
T 4fcg_A          235 DLRGC  239 (328)
T ss_dssp             ECTTC
T ss_pred             ECcCC
Confidence            77765

>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=99.64  E-value=3.2e-15  Score=167.25  Aligned_cols=171  Identities=25%  Similarity=0.215  Sum_probs=130.5

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc---cccccCCCCCcEEeccC
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL---SSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l---p~~i~~l~~L~~L~l~~  599 (1209)
                      ++...++.+..+|... .+++++|++.++  .+..++..+|.++++|++|++++|.++.+   |..+..+.+|++|++++
T Consensus        11 ~l~c~~~~l~~ip~~~-~~~l~~L~L~~n--~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~   87 (306)
T 2z66_A           11 EIRCNSKGLTSVPTGI-PSSATRLELESN--KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSF   87 (306)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCCEEECCSS--CCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCS
T ss_pred             EEEcCCCCcccCCCCC-CCCCCEEECCCC--ccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCC
Confidence            5666677777787654 378999999887  46678888888999999999999988755   56777889999999999


Q ss_pred             cccCCc-ccccCCCCCCEEEccCCCCCccch--hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          600 CQLEDV-AAIGQLKKLEILSFRYSDIKQLPL--EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       600 ~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      |.+..+ ..+..+++|++|++++|.++.++.  .+.++++|++|++++ +.+...++..+..+++|++|+++++....  
T Consensus        88 n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~--  164 (306)
T 2z66_A           88 NGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH-THTRVAFNGIFNGLSSLEVLKMAGNSFQE--  164 (306)
T ss_dssp             CSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTT-SCCEECSTTTTTTCTTCCEEECTTCEEGG--
T ss_pred             CccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCC-CcCCccchhhcccCcCCCEEECCCCcccc--
Confidence            998877 668889999999999998887764  688889999999988 45666666667888899999887764210  


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                           ......+..+++|+.|+++.+.+
T Consensus       165 -----~~~~~~~~~l~~L~~L~Ls~n~l  187 (306)
T 2z66_A          165 -----NFLPDIFTELRNLTFLDLSQCQL  187 (306)
T ss_dssp             -----GEECSCCTTCTTCCEEECTTSCC
T ss_pred             -----ccchhHHhhCcCCCEEECCCCCc
Confidence                 01223456667777777766543

>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=99.62  E-value=3.2e-14  Score=172.41  Aligned_cols=256  Identities=20%  Similarity=0.158  Sum_probs=185.7

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      ..++.+.+.++.+..+|.... ++|++|++.+|.  +..++.    .+++|++|+|++|.++.+|.   .+++|++|+++
T Consensus        40 ~~l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~--l~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  109 (622)
T 3g06_A           40 NGNAVLNVGESGLTTLPDCLP-AHITTLVIPDNN--LTSLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSIF  109 (622)
T ss_dssp             HCCCEEECCSSCCSCCCSCCC-TTCSEEEECSCC--CSCCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEEC
T ss_pred             CCCcEEEecCCCcCccChhhC-CCCcEEEecCCC--CCCCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECc
Confidence            358899999999999987654 899999999984  556665    57899999999999999987   78999999999


Q ss_pred             CcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       599 ~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +|.++.++.  .+.+|++|++++|.++.+|..   +++|++|++++ +.++.++.    .+.+|+.|++++|.+..    
T Consensus       110 ~N~l~~l~~--~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~-N~l~~l~~----~~~~L~~L~L~~N~l~~----  175 (622)
T 3g06_A          110 SNPLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSD-NQLASLPA----LPSELCKLWAYNNQLTS----  175 (622)
T ss_dssp             SCCCCCCCC--CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCS-SCCSCCCC----CCTTCCEEECCSSCCSC----
T ss_pred             CCcCCCCCC--CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcC-CcCCCcCC----ccCCCCEEECCCCCCCC----
Confidence            999988854  678999999999999999874   48899999999 46776654    35788999998764311    


Q ss_pred             CCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHH
Q 038494          679 GGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMK  758 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~  758 (1209)
                            +.  ..+++|+.|+++.+.+..++..  ..+|+.                                        
T Consensus       176 ------l~--~~~~~L~~L~Ls~N~l~~l~~~--~~~L~~----------------------------------------  205 (622)
T 3g06_A          176 ------LP--MLPSGLQELSVSDNQLASLPTL--PSELYK----------------------------------------  205 (622)
T ss_dssp             ------CC--CCCTTCCEEECCSSCCSCCCCC--CTTCCE----------------------------------------
T ss_pred             ------Cc--ccCCCCcEEECCCCCCCCCCCc--cchhhE----------------------------------------
Confidence                  11  3467899999988877665532  133333                                        


Q ss_pred             HHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccc
Q 038494          759 MLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQ  838 (1209)
Q Consensus       759 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  838 (1209)
                              |.+.++. ...    ++  ..+++|+.|+++++. +..++        ..+++|+.|+++++ +++.++.  
T Consensus       206 --------L~L~~N~-l~~----l~--~~~~~L~~L~Ls~N~-L~~lp--------~~l~~L~~L~Ls~N-~L~~lp~--  258 (622)
T 3g06_A          206 --------LWAYNNR-LTS----LP--ALPSGLKELIVSGNR-LTSLP--------VLPSELKELMVSGN-RLTSLPM--  258 (622)
T ss_dssp             --------EECCSSC-CSS----CC--CCCTTCCEEECCSSC-CSCCC--------CCCTTCCEEECCSS-CCSCCCC--
T ss_pred             --------EECcCCc-ccc----cC--CCCCCCCEEEccCCc-cCcCC--------CCCCcCcEEECCCC-CCCcCCc--
Confidence                    3332211 111    11  224678888887764 22221        34678888888873 5554332  


Q ss_pred             cccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccc
Q 038494          839 LREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCN  883 (1209)
Q Consensus       839 ~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~  883 (1209)
                           .+++|+.|++++| .++.+|.  .+.++++|+.|++++++
T Consensus       259 -----~~~~L~~L~Ls~N-~L~~lp~--~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          259 -----LPSGLLSLSVYRN-QLTRLPE--SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             -----CCTTCCEEECCSS-CCCSCCG--GGGGSCTTCEEECCSCC
T ss_pred             -----ccccCcEEeCCCC-CCCcCCH--HHhhccccCEEEecCCC
Confidence                 4678888888887 5667764  46778888888888775

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

Probab=99.62  E-value=1.1e-14  Score=171.68  Aligned_cols=152  Identities=20%  Similarity=0.298  Sum_probs=118.9

Q ss_pred             ccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       543 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      .+.++..+.  ....+|..+   .+.+++|+|++|.++.++ ..+.++++|++|++++|.++.+  ..+.++++|++|++
T Consensus        45 ~~~v~c~~~--~l~~iP~~~---~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L  119 (440)
T 3zyj_A           45 FSKVICVRK--NLREVPDGI---STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLEL  119 (440)
T ss_dssp             SCEEECCSC--CCSSCCSCC---CTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEEC
T ss_pred             CCEEEeCCC--CcCcCCCCC---CCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEEC
Confidence            445555554  456677654   368999999999999775 6899999999999999999887  67899999999999


Q ss_pred             cCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          620 RYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       620 ~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      ++|.++.+|. .+.++++|++|++++ +.+..+++..+.++++|++|+++++...       .......+..+++|+.|+
T Consensus       120 ~~n~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~l~~~~~l-------~~i~~~~~~~l~~L~~L~  191 (440)
T 3zyj_A          120 FDNRLTTIPNGAFVYLSKLKELWLRN-NPIESIPSYAFNRIPSLRRLDLGELKRL-------SYISEGAFEGLSNLRYLN  191 (440)
T ss_dssp             CSSCCSSCCTTTSCSCSSCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTC-------CEECTTTTTTCSSCCEEE
T ss_pred             CCCcCCeeCHhHhhccccCceeeCCC-CcccccCHHHhhhCcccCEeCCCCCCCc-------ceeCcchhhcccccCeec
Confidence            9999998876 588999999999999 6788888877899999999999874310       001122466788888888


Q ss_pred             eeccCCCCC
Q 038494          699 IQVQDAQML  707 (1209)
Q Consensus       699 l~~~~~~~~  707 (1209)
                      ++.+.+..+
T Consensus       192 L~~n~l~~~  200 (440)
T 3zyj_A          192 LAMCNLREI  200 (440)
T ss_dssp             CTTSCCSSC
T ss_pred             CCCCcCccc
Confidence            877665433

>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=1.1e-14  Score=172.46  Aligned_cols=152  Identities=18%  Similarity=0.245  Sum_probs=118.6

Q ss_pred             ccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       543 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      ...++..+.  ....+|..+   .++|++|+|++|.++.+ |..|.++++|++|++++|.++.+  ..+.++++|++|++
T Consensus        56 ~~~v~c~~~--~l~~iP~~~---~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L  130 (452)
T 3zyi_A           56 FSKVVCTRR--GLSEVPQGI---PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLEL  130 (452)
T ss_dssp             SCEEECCSS--CCSSCCSCC---CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CcEEEECCC--CcCccCCCC---CCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEEC
Confidence            345555554  355666543   36899999999999976 56899999999999999999887  67899999999999


Q ss_pred             cCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          620 RYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       620 ~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      ++|.++.+|.. +.++++|++|++++ +.+..+++..+.++++|++|+++++...       .......+..+++|+.|+
T Consensus       131 ~~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~~~~l-------~~i~~~~~~~l~~L~~L~  202 (452)
T 3zyi_A          131 FDNWLTVIPSGAFEYLSKLRELWLRN-NPIESIPSYAFNRVPSLMRLDLGELKKL-------EYISEGAFEGLFNLKYLN  202 (452)
T ss_dssp             CSSCCSBCCTTTSSSCTTCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTC-------CEECTTTTTTCTTCCEEE
T ss_pred             CCCcCCccChhhhcccCCCCEEECCC-CCcceeCHhHHhcCCcccEEeCCCCCCc-------cccChhhccCCCCCCEEE
Confidence            99999988765 88899999999999 6788888877899999999999874210       001122466788888888


Q ss_pred             eeccCCCCC
Q 038494          699 IQVQDAQML  707 (1209)
Q Consensus       699 l~~~~~~~~  707 (1209)
                      ++.+.+..+
T Consensus       203 L~~n~l~~~  211 (452)
T 3zyi_A          203 LGMCNIKDM  211 (452)
T ss_dssp             CTTSCCSSC
T ss_pred             CCCCccccc
Confidence            877665433

>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=99.61  E-value=5.3e-15  Score=169.14  Aligned_cols=153  Identities=24%  Similarity=0.335  Sum_probs=113.1

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCC
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLE  615 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~  615 (1209)
                      .|+.....+++++  ....+|..++   ++|++|++++|.++.+|. .+.++++|++|++++|.++.+  ..++++++|+
T Consensus        29 ~C~~~~~c~~~~~--~l~~iP~~~~---~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (353)
T 2z80_A           29 SCDRNGICKGSSG--SLNSIPSGLT---EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLE  103 (353)
T ss_dssp             EECTTSEEECCST--TCSSCCTTCC---TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCC
T ss_pred             CCCCCeEeeCCCC--Cccccccccc---ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCC
Confidence            4555556666655  4566776543   588999999999988776 788999999999999988877  5688899999


Q ss_pred             EEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCc-hhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCC
Q 038494          616 ILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAP-NVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSK  693 (1209)
Q Consensus       616 ~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~  693 (1209)
                      +|++++|.++.+|.. ++++++|++|++++ +.++.++. ..+.++++|++|++++|...       .......+..+++
T Consensus       104 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~l~~~~~~~~l~~L~~L~l~~n~~~-------~~~~~~~~~~l~~  175 (353)
T 2z80_A          104 HLDLSYNYLSNLSSSWFKPLSSLTFLNLLG-NPYKTLGETSLFSHLTKLQILRVGNMDTF-------TKIQRKDFAGLTF  175 (353)
T ss_dssp             EEECCSSCCSSCCHHHHTTCTTCSEEECTT-CCCSSSCSSCSCTTCTTCCEEEEEESSSC-------CEECTTTTTTCCE
T ss_pred             EEECCCCcCCcCCHhHhCCCccCCEEECCC-CCCcccCchhhhccCCCCcEEECCCCccc-------cccCHHHccCCCC
Confidence            999999988888876 78899999999988 56777766 45778888888888765210       0111234566677


Q ss_pred             CCEEEeeccCC
Q 038494          694 LTTLEIQVQDA  704 (1209)
Q Consensus       694 L~~L~l~~~~~  704 (1209)
                      |+.|+++.+..
T Consensus       176 L~~L~l~~n~l  186 (353)
T 2z80_A          176 LEELEIDASDL  186 (353)
T ss_dssp             EEEEEEEETTC
T ss_pred             CCEEECCCCCc
Confidence            77777766554

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

Probab=99.60  E-value=2.3e-15  Score=168.40  Aligned_cols=151  Identities=17%  Similarity=0.267  Sum_probs=113.3

Q ss_pred             CCccEEEeccCCCccc-ccChhhhcCCCCCcEEEecC-cccc-cccccccCCCCCcEEeccCcccCC-c-ccccCCCCCC
Q 038494          541 PQLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSG-IHFS-SLSSSLGHLINLQTLCLDWCQLED-V-AAIGQLKKLE  615 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~-~~~~~~~~~l~~Lr~L~L~~-~~i~-~lp~~i~~l~~L~~L~l~~~~l~~-l-~~i~~L~~L~  615 (1209)
                      .++++|++.++..... .++. .|.++++|++|++++ +.+. .+|..++++++|++|++++|.+.. + ..++++++|+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~-~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPS-SLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCG-GGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccCh-hHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            5789999988752110 4554 468899999999995 7776 788899999999999999999874 3 6789999999


Q ss_pred             EEEccCCCCC-ccchhccCCCCCCEEeccCCCCCcccCchhhcCCC-CCcEEECCCCCCccccccCCCccchhhhCCCCC
Q 038494          616 ILSFRYSDIK-QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFS-RLEELYMGDSFPQWDKVEGGSNASLAELKGLSK  693 (1209)
Q Consensus       616 ~L~l~~~~~~-~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~-~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~  693 (1209)
                      +|++++|.+. .+|..+.++++|++|++++ +.++...+..+++++ +|++|+++++...     +   .....+..++ 
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~-N~l~~~~p~~l~~l~~~L~~L~L~~N~l~-----~---~~~~~~~~l~-  198 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDG-NRISGAIPDSYGSFSKLFTSMTISRNRLT-----G---KIPPTFANLN-  198 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCS-SCCEEECCGGGGCCCTTCCEEECCSSEEE-----E---ECCGGGGGCC-
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcC-CcccCcCCHHHhhhhhcCcEEECcCCeee-----c---cCChHHhCCc-
Confidence            9999999888 7888899999999999998 556633334488887 8999999876421     1   1122334444 


Q ss_pred             CCEEEeecc
Q 038494          694 LTTLEIQVQ  702 (1209)
Q Consensus       694 L~~L~l~~~  702 (1209)
                      |+.|+++.+
T Consensus       199 L~~L~Ls~N  207 (313)
T 1ogq_A          199 LAFVDLSRN  207 (313)
T ss_dssp             CSEEECCSS
T ss_pred             ccEEECcCC
Confidence            777777654

>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=99.59  E-value=1.4e-16  Score=190.14  Aligned_cols=156  Identities=20%  Similarity=0.189  Sum_probs=103.7

Q ss_pred             CCccEEEeccCCCccccc-ChhhhcCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCCc--ccc-cCC
Q 038494          541 PQLKLLLLLANGDSYLEI-SHLFFEGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLEDV--AAI-GQL  611 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~-~~~~~~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l--~~i-~~L  611 (1209)
                      +++++|+++++.  +... ...++..+++|++|++++|.++     .++..+..+++|++|++++|.+...  ..+ ..+
T Consensus         3 ~~l~~L~Ls~~~--l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l   80 (461)
T 1z7x_W            3 LDIQSLDIQCEE--LSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGL   80 (461)
T ss_dssp             EEEEEEEEESCC--CCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTT
T ss_pred             ccceehhhhhcc--cCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHH
Confidence            567778887664  2222 2334677889999999999887     4577788889999999999887653  222 234


Q ss_pred             C----CCCEEEccCCCCC-----ccchhccCCCCCCEEeccCCCCCcccCchhh-----cCCCCCcEEECCCCCCccccc
Q 038494          612 K----KLEILSFRYSDIK-----QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVI-----SKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       612 ~----~L~~L~l~~~~~~-----~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l-----~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      .    +|++|++++|.+.     .+|..+.++++|++|++++| .+.......+     ...++|++|++++|.....  
T Consensus        81 ~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~--  157 (461)
T 1z7x_W           81 QTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN-LLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAA--  157 (461)
T ss_dssp             CSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGG--
T ss_pred             hhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCC-cCchHHHHHHHHHHhcCCCcceEEECCCCCCCHH--
Confidence            4    6999999998877     45777888999999999884 3543322212     2356788888887643110  


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccC
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQD  703 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~  703 (1209)
                        ........+..+++|+.|+++.+.
T Consensus       158 --~~~~l~~~l~~~~~L~~L~L~~n~  181 (461)
T 1z7x_W          158 --SCEPLASVLRAKPDFKELTVSNND  181 (461)
T ss_dssp             --GHHHHHHHHHHCTTCCEEECCSSB
T ss_pred             --HHHHHHHHHhhCCCCCEEECcCCC
Confidence              001123345567788888876653

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.58  E-value=1.3e-14  Score=160.38  Aligned_cols=195  Identities=23%  Similarity=0.328  Sum_probs=147.7

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcc-cccc-cccccCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIH-FSSL-SSSLGHLIN  591 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~-i~~l-p~~i~~l~~  591 (1209)
                      ..+.+++++.++++.+..++..  ..+++|++|++.+|  .+..+....|.++++|++|++++|. +..+ |..+..+++
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 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN--VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (285)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS--CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCC--ccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcC
Confidence            3466888888888888877643  36888899988887  4556666667888889999998886 7776 567888888


Q ss_pred             CcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          592 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       592 L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      |++|++++|.+..+  ..+.++++|++|++++|.++.+|.. ++++++|++|++++ +.++.+++..+..+++|++|+++
T Consensus       107 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~  185 (285)
T 1ozn_A          107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLH  185 (285)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCC-CcccccCHHHhcCccccCEEECC
Confidence            99999998888777  5578888899999988888877654 78888899999888 56777777668888889999888


Q ss_pred             CCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcc--cccCCCCeEEE
Q 038494          669 DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQD--LVFVELPRYRI  721 (1209)
Q Consensus       669 ~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l  721 (1209)
                      ++...        ......+..+++|+.|+++.+.+..++..  ....+|+.|.+
T Consensus       186 ~n~l~--------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  232 (285)
T 1ozn_A          186 QNRVA--------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (285)
T ss_dssp             SSCCC--------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             CCccc--------ccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEec
Confidence            76431        11134567778888888888887766643  24555666554

>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=99.58  E-value=4.5e-14  Score=171.15  Aligned_cols=258  Identities=18%  Similarity=0.100  Sum_probs=163.6

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEcc
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFR  620 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~  620 (1209)
                      .++++|++.++.  +..+|..++   ++|++|++++|.++.+|.   .+++|++|++++|.++.++.  .+++|++|+++
T Consensus        40 ~~l~~L~ls~n~--L~~lp~~l~---~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls  109 (622)
T 3g06_A           40 NGNAVLNVGESG--LTTLPDCLP---AHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSLPV--LPPGLLELSIF  109 (622)
T ss_dssp             HCCCEEECCSSC--CSCCCSCCC---TTCSEEEECSCCCSCCCC---CCTTCCEEEECSCCCSCCCC--CCTTCCEEEEC
T ss_pred             CCCcEEEecCCC--cCccChhhC---CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCCcCCcCCC--CCCCCCEEECc
Confidence            357788887773  456666543   688888888888888877   56788888888888877744  67888888888


Q ss_pred             CCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEee
Q 038494          621 YSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQ  700 (1209)
Q Consensus       621 ~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~  700 (1209)
                      +|.++.+|.   .+.+|++|++++ +.++.+|..    +++|++|++++|.+..          +.  ..+.+|+.|+++
T Consensus       110 ~N~l~~l~~---~l~~L~~L~L~~-N~l~~lp~~----l~~L~~L~Ls~N~l~~----------l~--~~~~~L~~L~L~  169 (622)
T 3g06_A          110 SNPLTHLPA---LPSGLCKLWIFG-NQLTSLPVL----PPGLQELSVSDNQLAS----------LP--ALPSELCKLWAY  169 (622)
T ss_dssp             SCCCCCCCC---CCTTCCEEECCS-SCCSCCCCC----CTTCCEEECCSSCCSC----------CC--CCCTTCCEEECC
T ss_pred             CCcCCCCCC---CCCCcCEEECCC-CCCCcCCCC----CCCCCEEECcCCcCCC----------cC--CccCCCCEEECC
Confidence            888888876   567888888887 556666542    4778888887764210          00  123567777777


Q ss_pred             ccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccc
Q 038494          701 VQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVH  780 (1209)
Q Consensus       701 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~  780 (1209)
                      .+.+..++  ...                                                ++|+.|++.+.. +..   
T Consensus       170 ~N~l~~l~--~~~------------------------------------------------~~L~~L~Ls~N~-l~~---  195 (622)
T 3g06_A          170 NNQLTSLP--MLP------------------------------------------------SGLQELSVSDNQ-LAS---  195 (622)
T ss_dssp             SSCCSCCC--CCC------------------------------------------------TTCCEEECCSSC-CSC---
T ss_pred             CCCCCCCc--ccC------------------------------------------------CCCcEEECCCCC-CCC---
Confidence            76655443  111                                                233444443321 111   


Q ss_pred             cccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCcc
Q 038494          781 ELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLK  860 (1209)
Q Consensus       781 ~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~  860 (1209)
                       ++  ..+++|+.|.+.++. +..++        ..+++|+.|+++++ +++.++       ..+++|++|++++| +++
T Consensus       196 -l~--~~~~~L~~L~L~~N~-l~~l~--------~~~~~L~~L~Ls~N-~L~~lp-------~~l~~L~~L~Ls~N-~L~  254 (622)
T 3g06_A          196 -LP--TLPSELYKLWAYNNR-LTSLP--------ALPSGLKELIVSGN-RLTSLP-------VLPSELKELMVSGN-RLT  254 (622)
T ss_dssp             -CC--CCCTTCCEEECCSSC-CSSCC--------CCCTTCCEEECCSS-CCSCCC-------CCCTTCCEEECCSS-CCS
T ss_pred             -CC--CccchhhEEECcCCc-ccccC--------CCCCCCCEEEccCC-ccCcCC-------CCCCcCcEEECCCC-CCC
Confidence             11  124678888887764 22221        23577888888773 555432       34678888888886 566


Q ss_pred             ccccHHHHhhcccccEEEEecccccccccccCCCCCCccccccccccCCCCCCCccCccccceEeeccccch
Q 038494          861 HLFSFSIARNLLRLQKVKVASCNKLEMTVGPDREKPTTSLGFNEIIADDDTAPKVGIPSSLVNLKVSKCQKI  932 (1209)
Q Consensus       861 ~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~sL~~L~l~~c~~l  932 (1209)
                      .+|.     .+++|+.|++++| .+..++                       ..+..+++|+.|++++|+-.
T Consensus       255 ~lp~-----~~~~L~~L~Ls~N-~L~~lp-----------------------~~l~~l~~L~~L~L~~N~l~  297 (622)
T 3g06_A          255 SLPM-----LPSGLLSLSVYRN-QLTRLP-----------------------ESLIHLSSETTVNLEGNPLS  297 (622)
T ss_dssp             CCCC-----CCTTCCEEECCSS-CCCSCC-----------------------GGGGGSCTTCEEECCSCCCC
T ss_pred             cCCc-----ccccCcEEeCCCC-CCCcCC-----------------------HHHhhccccCEEEecCCCCC
Confidence            6665     4677888888776 333221                       22355677777777776543

>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=99.57  E-value=1.6e-14  Score=159.62  Aligned_cols=171  Identities=20%  Similarity=0.292  Sum_probs=131.6

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  600 (1209)
                      +.+...+..+..+|... .+++++|++.++  .+..++...|.++++|++|++++|.++.+ |..+..+++|++|++++|
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-PAASQRIFLHGN--RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             CEEECCSSCCSSCCTTC-CTTCSEEECTTS--CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCcCCcccCCcCC-CCCceEEEeeCC--cCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            56667777777777643 578999999887  46667777778899999999999988876 668889999999999999


Q ss_pred             c-cCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          601 Q-LEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       601 ~-l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      . +..+  ..+.++++|++|++++|.+..+ |..+.++++|++|++++ +.+..+++..++++++|++|+++++....  
T Consensus        91 ~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~--  167 (285)
T 1ozn_A           91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD-NALQALPDDTFRDLGNLTHLFLHGNRISS--  167 (285)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCE--
T ss_pred             CCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCC-CcccccCHhHhccCCCccEEECCCCcccc--
Confidence            7 7776  6688899999999999888876 45678889999999988 56777777667888889999888764210  


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                            .....+..+++|+.|+++.+.+
T Consensus       168 ------~~~~~~~~l~~L~~L~l~~n~l  189 (285)
T 1ozn_A          168 ------VPERAFRGLHSLDRLLLHQNRV  189 (285)
T ss_dssp             ------ECTTTTTTCTTCCEEECCSSCC
T ss_pred             ------cCHHHhcCccccCEEECCCCcc
Confidence                  0112356677788888776554

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

Probab=99.56  E-value=1.3e-14  Score=162.75  Aligned_cols=108  Identities=18%  Similarity=0.253  Sum_probs=77.8

Q ss_pred             ccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccC
Q 038494          555 YLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQ  633 (1209)
Q Consensus       555 ~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~  633 (1209)
                      ....+...+..+++|++|++++|.++.++ ..+..+++|++|++++|.+.....+..+++|++|++++|.++.+|.    
T Consensus        22 l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~~----   97 (317)
T 3o53_A           22 LKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLV----   97 (317)
T ss_dssp             HHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEEE----
T ss_pred             hhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccccccC----
Confidence            34445556677778888888888888665 5788888888888888888777558888888888888887776653    


Q ss_pred             CCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          634 LAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       634 L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .++|++|++++ +.+..+++.   .+++|++|++++|
T Consensus        98 ~~~L~~L~l~~-n~l~~~~~~---~~~~L~~L~l~~N  130 (317)
T 3o53_A           98 GPSIETLHAAN-NNISRVSCS---RGQGKKNIYLANN  130 (317)
T ss_dssp             CTTCCEEECCS-SCCSEEEEC---CCSSCEEEECCSS
T ss_pred             CCCcCEEECCC-CccCCcCcc---ccCCCCEEECCCC
Confidence            37788888887 455555432   3566777776655

>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=99.54  E-value=1.6e-13  Score=153.00  Aligned_cols=188  Identities=19%  Similarity=0.254  Sum_probs=157.7

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ..+++++.+.++.+..++....+++|++|++++|  .+..++.  +..+++|++|++++|.++.+| .+..+++|++|++
T Consensus        40 l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n--~i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l  114 (308)
T 1h6u_A           40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDN--QITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDL  114 (308)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEEC
T ss_pred             cCCcCEEEeeCCCccCchhhhccCCCCEEEccCC--cCCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEEC
Confidence            4578999999999988887678999999999988  4556665  789999999999999999886 5899999999999


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccc
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      ++|.++.+..+..+++|++|++++|.++.+|. +.++++|++|++++ +.++.+++  +.++++|++|++++|...    
T Consensus       115 ~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~-n~l~~~~~--l~~l~~L~~L~l~~n~l~----  186 (308)
T 1h6u_A          115 TSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGN-AQVSDLTP--LANLSKLTTLKADDNKIS----  186 (308)
T ss_dssp             TTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCS-SCCCCCGG--GTTCTTCCEEECCSSCCC----
T ss_pred             CCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccC-CcCCCChh--hcCCCCCCEEECCCCccC----
Confidence            99999988779999999999999999998876 88999999999999 56777665  889999999999887431    


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEc
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIG  724 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  724 (1209)
                            .+..+..+++|+.|+++.+.+..++.-..+.+|+.|.+...
T Consensus       187 ------~~~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N  227 (308)
T 1h6u_A          187 ------DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQ  227 (308)
T ss_dssp             ------CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEEE
T ss_pred             ------cChhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccCC
Confidence                  12237788999999999998887765446677888877644

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

Probab=99.53  E-value=1.4e-14  Score=162.48  Aligned_cols=245  Identities=19%  Similarity=0.094  Sum_probs=168.9

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILS  618 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~  618 (1209)
                      .+++|++|++++|  .+..++...|.++++|++|++++|.++.+++ +..+++|++|++++|.++.+.   ..++|++|+
T Consensus        32 ~~~~L~~L~L~~n--~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~---~~~~L~~L~  105 (317)
T 3o53_A           32 SAWNVKELDLSGN--PLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL---VGPSIETLH  105 (317)
T ss_dssp             TGGGCSEEECTTS--CCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCSSEEEEEE---ECTTCCEEE
T ss_pred             cCCCCCEEECcCC--ccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcCCcccccc---CCCCcCEEE
Confidence            4678999999888  4666777778999999999999999987765 899999999999999876653   348999999


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhh-CCCCCCCEE
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAEL-KGLSKLTTL  697 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L-~~l~~L~~L  697 (1209)
                      +++|.++.++..  .+++|++|++++ +.++.+++..++.+++|++|++++|....        .....+ ..+++|+.|
T Consensus       106 l~~n~l~~~~~~--~~~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~--------~~~~~~~~~l~~L~~L  174 (317)
T 3o53_A          106 AANNNISRVSCS--RGQGKKNIYLAN-NKITMLRDLDEGCRSRVQYLDLKLNEIDT--------VNFAELAASSDTLEHL  174 (317)
T ss_dssp             CCSSCCSEEEEC--CCSSCEEEECCS-SCCCSGGGBCTGGGSSEEEEECTTSCCCE--------EEGGGGGGGTTTCCEE
T ss_pred             CCCCccCCcCcc--ccCCCCEEECCC-CCCCCccchhhhccCCCCEEECCCCCCCc--------ccHHHHhhccCcCCEE
Confidence            999999887653  478899999998 67777776668889999999998764311        011222 356778888


Q ss_pred             EeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhcccceeeecccccccc
Q 038494          698 EIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQN  777 (1209)
Q Consensus       698 ~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~  777 (1209)
                      +++.+.+..++.                                                                    
T Consensus       175 ~L~~N~l~~~~~--------------------------------------------------------------------  186 (317)
T 3o53_A          175 NLQYNFIYDVKG--------------------------------------------------------------------  186 (317)
T ss_dssp             ECTTSCCCEEEC--------------------------------------------------------------------
T ss_pred             ECCCCcCccccc--------------------------------------------------------------------
Confidence            876654421110                                                                    


Q ss_pred             ccccccCCCCccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCC
Q 038494          778 VVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCD  857 (1209)
Q Consensus       778 ~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~  857 (1209)
                             ...+++|++|+++++. +..++..     ...+++|+.|++++ +.++.++..    ...+++|+.|++++++
T Consensus       187 -------~~~l~~L~~L~Ls~N~-l~~l~~~-----~~~l~~L~~L~L~~-N~l~~l~~~----~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          187 -------QVVFAKLKTLDLSSNK-LAFMGPE-----FQSAAGVTWISLRN-NKLVLIEKA----LRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             -------CCCCTTCCEEECCSSC-CCEECGG-----GGGGTTCSEEECTT-SCCCEECTT----CCCCTTCCEEECTTCC
T ss_pred             -------ccccccCCEEECCCCc-CCcchhh-----hcccCcccEEECcC-CcccchhhH----hhcCCCCCEEEccCCC
Confidence                   1225566666666654 2222111     23467777777777 355544321    1457888888888875


Q ss_pred             CccccccHHHHhhcccccEEEEeccccccc
Q 038494          858 KLKHLFSFSIARNLLRLQKVKVASCNKLEM  887 (1209)
Q Consensus       858 ~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~  887 (1209)
                      -.... ...++..++.|+.|++.++..++.
T Consensus       249 ~~~~~-~~~~~~~~~~L~~l~l~~~~~l~~  277 (317)
T 3o53_A          249 FHCGT-LRDFFSKNQRVQTVAKQTVKKLTG  277 (317)
T ss_dssp             CBHHH-HHHHHHTCHHHHHHHHHHHHHHHS
T ss_pred             ccCcC-HHHHHhccccceEEECCCchhccC
Confidence            43122 124667788888888887766544

>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=99.53  E-value=1.3e-13  Score=154.10  Aligned_cols=180  Identities=22%  Similarity=0.239  Sum_probs=142.4

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCc
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQ  593 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~  593 (1209)
                      ..+.+++++.+.++.+..++..  ..+++|++|++.+|...........+..+++|++|++++|.+..+|..+..+++|+
T Consensus        25 ~~~~~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           25 GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLE  104 (306)
T ss_dssp             CCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEETCTTCC
T ss_pred             CCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCccccChhhcCCCCCCC
Confidence            3457899999999999988874  48999999999998522212112334579999999999999999999999999999


Q ss_pred             EEeccCcccCCc---ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcc-cCchhhcCCCCCcEEECC
Q 038494          594 TLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVV-IAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       594 ~L~l~~~~l~~l---~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~-~~~~~l~~L~~L~~L~l~  668 (1209)
                      +|++++|.++.+   ..+.++++|++|++++|.+... |..+.++++|++|++++| .+.. ..+..+..+++|++|+++
T Consensus       105 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~~l~~L~~L~Ls  183 (306)
T 2z66_A          105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELRNLTFLDLS  183 (306)
T ss_dssp             EEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTC-EEGGGEECSCCTTCTTCCEEECT
T ss_pred             EEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCC-ccccccchhHHhhCcCCCEEECC
Confidence            999999998877   3689999999999999988854 556889999999999994 4544 334458899999999998


Q ss_pred             CCCCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          669 DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       669 ~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      +|...        ......+..+++|+.|+++.+.+
T Consensus       184 ~n~l~--------~~~~~~~~~l~~L~~L~L~~N~l  211 (306)
T 2z66_A          184 QCQLE--------QLSPTAFNSLSSLQVLNMSHNNF  211 (306)
T ss_dssp             TSCCC--------EECTTTTTTCTTCCEEECTTSCC
T ss_pred             CCCcC--------CcCHHHhcCCCCCCEEECCCCcc
Confidence            87431        11123466778888888876654

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

Probab=99.53  E-value=2.5e-13  Score=148.45  Aligned_cols=191  Identities=20%  Similarity=0.311  Sum_probs=148.7

Q ss_pred             CeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc-ccCCCCCcEEecc
Q 038494          520 GAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LGHLINLQTLCLD  598 (1209)
Q Consensus       520 ~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~-i~~l~~L~~L~l~  598 (1209)
                      ..+.+...++.+..+|.... +++++|++.++  .+..++...|.++++|++|++++|.++.+|.. +..+++|++|+++
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~-~~l~~L~l~~n--~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~   93 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIP-ADTKKLDLQSN--KLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVT   93 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCC-TTCSEEECCSS--CCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECC
T ss_pred             CCCEEEccCCCCCccCCCCC-CCCCEEECcCC--CCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECC
Confidence            45678888888888876543 68999999887  46677777788899999999999999888765 5789999999999


Q ss_pred             CcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccc
Q 038494          599 WCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWD  675 (1209)
Q Consensus       599 ~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~  675 (1209)
                      +|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ +.++.+++..+..+++|++|+++++.... 
T Consensus        94 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-  171 (270)
T 2o6q_A           94 DNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY-NELQSLPKGVFDKLTSLKELRLYNNQLKR-  171 (270)
T ss_dssp             SSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSC-
T ss_pred             CCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCC-CcCCccCHhHccCCcccceeEecCCcCcE-
Confidence            9998887  4578899999999999988877654 68899999999998 56777877778889999999998764311 


Q ss_pred             cccCCCccchhhhCCCCCCCEEEeeccCCCCCCccc--ccCCCCeEEEE
Q 038494          676 KVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDL--VFVELPRYRIC  722 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~  722 (1209)
                             .....+..+++|+.|+++.+.+..++...  ...+|+.|.+.
T Consensus       172 -------~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  213 (270)
T 2o6q_A          172 -------VPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQ  213 (270)
T ss_dssp             -------CCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             -------eChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEec
Confidence                   11123677888999999988887776542  45566666553

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.52  E-value=3.3e-13  Score=148.75  Aligned_cols=191  Identities=24%  Similarity=0.292  Sum_probs=158.6

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      ..++.+.+.++.+..+|... .+++++|++++|  .+..++...|.++++|++|++++|.++.+|.. +.+++|++|+++
T Consensus        10 ~~l~~l~~~~~~l~~ip~~~-~~~l~~L~L~~N--~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls   85 (290)
T 1p9a_G           10 ASHLEVNCDKRNLTALPPDL-PKDTTILHLSEN--LLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLS   85 (290)
T ss_dssp             TTCCEEECTTSCCSSCCSCC-CTTCCEEECTTS--CCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEECC
T ss_pred             CCccEEECCCCCCCcCCCCC-CCCCCEEEcCCC--cCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEECC
Confidence            46788999999999888765 379999999998  46667777789999999999999999988774 899999999999


Q ss_pred             CcccCCc-ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          599 WCQLEDV-AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       599 ~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      +|.++.+ ..+..+++|++|++++|.++.+|. .+.++++|++|++++ +.++.++++.+..+++|+.|++++|....  
T Consensus        86 ~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~--  162 (290)
T 1p9a_G           86 HNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKLEKLSLANNNLTE--  162 (290)
T ss_dssp             SSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTT-SCCCCCCTTTTTTCTTCCEEECTTSCCSC--
T ss_pred             CCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCC-CCCCccChhhcccccCCCEEECCCCcCCc--
Confidence            9999988 778899999999999999998874 589999999999999 67888888878899999999998875321  


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCCCCCCccc-ccCCCCeEEEE
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDL-VFVELPRYRIC  722 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  722 (1209)
                            -....+..+++|+.|+++.+.+..+|... ....|+.+.+.
T Consensus       163 ------l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~  203 (290)
T 1p9a_G          163 ------LPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (290)
T ss_dssp             ------CCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             ------cCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeC
Confidence                  01123577899999999999998887763 44556666553

>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=99.52  E-value=1.3e-15  Score=181.78  Aligned_cols=182  Identities=16%  Similarity=0.154  Sum_probs=109.9

Q ss_pred             CCeEEEEccCCCCccCCC---cCCCCCccEEEeccCCCcccc--cChhhhcCCCCCcEEEecCcccccc-cccc-cCCC-
Q 038494          519 KGAIAISIPYGDIQELPE---RLECPQLKLLLLLANGDSYLE--ISHLFFEGTEDLKVLSLSGIHFSSL-SSSL-GHLI-  590 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~---~~~~~~L~~L~l~~~~~~~~~--~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i-~~l~-  590 (1209)
                      ++++++.++++.+...+.   ...+++|++|++.++......  .....+..+++|++|++++|.+... +..+ ..+. 
T Consensus         3 ~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~   82 (461)
T 1z7x_W            3 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   82 (461)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             ccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhh
Confidence            456777887776654331   125778888888877421110  1123457788888888888887642 2222 3344 


Q ss_pred             ---CCcEEeccCcccCC-----c-ccccCCCCCCEEEccCCCCCcc-ch----h-ccCCCCCCEEeccCCCCCcccC---
Q 038494          591 ---NLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRYSDIKQL-PL----E-IGQLAQLQLLDLSNCSSLVVIA---  652 (1209)
Q Consensus       591 ---~L~~L~l~~~~l~~-----l-~~i~~L~~L~~L~l~~~~~~~l-p~----~-i~~L~~L~~L~l~~~~~l~~~~---  652 (1209)
                         +|++|++++|.+..     + ..+.++++|++|++++|.+... +.    . ....++|++|++++| .++...   
T Consensus        83 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~  161 (461)
T 1z7x_W           83 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYC-SLSAASCEP  161 (461)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCBGGGHHH
T ss_pred             CCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCC-CCCHHHHHH
Confidence               68888888888763     2 6677888888888888877532 22    2 223567888888885 444322   


Q ss_pred             -chhhcCCCCCcEEECCCCCCccccccCCCccchhhhC-CCCCCCEEEeeccCCC
Q 038494          653 -PNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELK-GLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       653 -~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~-~l~~L~~L~l~~~~~~  705 (1209)
                       +..+..+++|++|+++++......    .......+. ..++|+.|+++.+.+.
T Consensus       162 l~~~l~~~~~L~~L~L~~n~i~~~~----~~~l~~~l~~~~~~L~~L~L~~n~l~  212 (461)
T 1z7x_W          162 LASVLRAKPDFKELTVSNNDINEAG----VRVLCQGLKDSPCQLEALKLESCGVT  212 (461)
T ss_dssp             HHHHHHHCTTCCEEECCSSBCHHHH----HHHHHHHHHHSCCCCCEEECTTSCCB
T ss_pred             HHHHHhhCCCCCEEECcCCCcchHH----HHHHHHHHhcCCCCceEEEccCCCCc
Confidence             233566788888888776421100    000111121 3568888888776543

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

Probab=99.51  E-value=2.6e-13  Score=148.28  Aligned_cols=178  Identities=24%  Similarity=0.356  Sum_probs=151.8

Q ss_pred             hhcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINL  592 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L  592 (1209)
                      ..+..++++.+.++.+..++.  ...+++|++|++.+|  .+..++...|.++++|++|++++|.++.+|. .+..+++|
T Consensus        34 ~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n--~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  111 (270)
T 2o6q_A           34 NIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDN--KLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNL  111 (270)
T ss_dssp             CCCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSS--CCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSC
T ss_pred             CCCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCC--ccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCC
Confidence            345689999999999998875  347999999999998  4678888888999999999999999998875 56899999


Q ss_pred             cEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          593 QTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       593 ~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      ++|++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ +.++.+++..+.++++|++|++++
T Consensus       112 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~  190 (270)
T 2o6q_A          112 AELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN-NQLKRVPEGAFDKLTELKTLKLDN  190 (270)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecC-CcCcEeChhHhccCCCcCEEECCC
Confidence            9999999999888  5589999999999999999988876 78999999999999 678888877788999999999988


Q ss_pred             CCCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          670 SFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       670 ~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      |....        .....+..+++|+.|+++.+..
T Consensus       191 N~l~~--------~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          191 NQLKR--------VPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             SCCSC--------CCTTTTTTCTTCCEEECCSSCB
T ss_pred             CcCCc--------CCHHHhccccCCCEEEecCCCe
Confidence            74321        1112467788999999998764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.51  E-value=1.6e-13  Score=156.78  Aligned_cols=297  Identities=16%  Similarity=0.145  Sum_probs=174.0

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc------CHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP------DVQKIQDK  230 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~------~~~~l~~~  230 (1209)
                      ....|+||+++++.|.+++..+  +++.|+|++|+|||||++++++..      + ++|+++....      +...++..
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHHHH
Confidence            3567999999999999998764  799999999999999999998764      1 6788875432      56667777


Q ss_pred             HHHHhCC-----------------CCC-CCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-----cccCCCCCCCCc
Q 038494          231 LASDLDL-----------------NFD-LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-----EEIGIPFGDVDE  287 (1209)
Q Consensus       231 i~~~l~~-----------------~~~-~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-----~~l~~~~~~~~~  287 (1209)
                      +.+.+..                 ... .........+.+.......++.+||+||++....+     ..+...+..   
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~---  157 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAY---  157 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHH---
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHH---
Confidence            7665542                 000 01122333333433333223899999999876431     111100000   


Q ss_pred             cccccccCCcEEEEeccchhhhcc---------cC--CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHH
Q 038494          288 KDRKQDLRRRTIILTSRSKHLLTN---------DM--NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGK  356 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~~~v~~~---------~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~  356 (1209)
                        .....++.++|+|++.......         ..  .....+.+.+|+.+|+.+++.......... -..+.+.+|++.
T Consensus       158 --~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~-~~~~~~~~i~~~  234 (350)
T 2qen_A          158 --AYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD-VPENEIEEAVEL  234 (350)
T ss_dssp             --HHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC-CCHHHHHHHHHH
T ss_pred             --HHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHH
Confidence              0001146789999876532110         01  123589999999999999998765322111 224678899999


Q ss_pred             hCCChhHHHHHHHHHhc-CChhHH-HHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccCcCcccc
Q 038494          357 CGGLPVALSTVANALKN-KKLPVW-KDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQ  434 (1209)
Q Consensus       357 ~~glPLai~~~~~~l~~-~~~~~w-~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~  434 (1209)
                      ++|+|+++..++..+.. .+...+ ..+.+.....       ....+..   +.+ + ++. .+..+..+|. .   .++
T Consensus       235 tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~l~~---l~~-~-~~~-~~~~l~~la~-g---~~~  297 (350)
T 2qen_A          235 LDGIPGWLVVFGVEYLRNGDFGRAMKRTLEVAKGL-------IMGELEE---LRR-R-SPR-YVDILRAIAL-G---YNR  297 (350)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-------HHHHHHH---HHH-H-CHH-HHHHHHHHHT-T---CCS
T ss_pred             hCCCHHHHHHHHHHHhccccHhHHHHHHHHHHHHH-------HHHHHHH---HHh-C-Chh-HHHHHHHHHh-C---CCC
Confidence            99999999999876432 222221 1111111000       0011111   011 2 555 7888888887 2   245


Q ss_pred             HHHHHHhhhhhccccccHHHHHHHHHHHHHHHHhcccccCCCCCCceEe-hhHHHHHHH
Q 038494          435 VASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVKM-HDVIHVVAV  492 (1209)
Q Consensus       435 ~~~li~~~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~m-Hdlv~~~~~  492 (1209)
                      ...+.........+ ..    ...+..+++.|++.+++...  .+.|.+ |++++++.+
T Consensus       298 ~~~l~~~~~~~~~~-~~----~~~~~~~l~~L~~~gli~~~--~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          298 WSLIRDYLAVKGTK-IP----EPRLYALLENLKKMNWIVEE--DNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHHHHHTTCC-CC----HHHHHHHHHHHHHTTSEEEE--TTEEEESSHHHHHHHT
T ss_pred             HHHHHHHHHHHhCC-CC----HHHHHHHHHHHHhCCCEEec--CCEEEEecHHHHHHHc
Confidence            45554332110000 11    23345678889999999764  245655 888888753

>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=99.49  E-value=4.2e-13  Score=149.57  Aligned_cols=152  Identities=24%  Similarity=0.339  Sum_probs=124.5

Q ss_pred             cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCE
Q 038494          537 RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEI  616 (1209)
Q Consensus       537 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~  616 (1209)
                      ...+++|++|++.++.  +..++  .+..+++|++|++++|.++.++. +..+++|++|++++|.++.+..+..+++|++
T Consensus        37 ~~~l~~L~~L~l~~~~--i~~l~--~~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~  111 (308)
T 1h6u_A           37 QADLDGITTLSAFGTG--VTTIE--GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKT  111 (308)
T ss_dssp             HHHHHTCCEEECTTSC--CCCCT--TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCE
T ss_pred             HHHcCCcCEEEeeCCC--ccCch--hhhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCcCCCchhhcCCCCCCE
Confidence            3467899999998873  45554  26789999999999999998888 9999999999999999988888999999999


Q ss_pred             EEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCE
Q 038494          617 LSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTT  696 (1209)
Q Consensus       617 L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~  696 (1209)
                      |++++|.++.+|. +.++++|++|++++ +.++.+++  ++.+++|++|++++|...          .+..+..+++|+.
T Consensus       112 L~l~~n~l~~~~~-l~~l~~L~~L~l~~-n~l~~~~~--l~~l~~L~~L~l~~n~l~----------~~~~l~~l~~L~~  177 (308)
T 1h6u_A          112 LDLTSTQITDVTP-LAGLSNLQVLYLDL-NQITNISP--LAGLTNLQYLSIGNAQVS----------DLTPLANLSKLTT  177 (308)
T ss_dssp             EECTTSCCCCCGG-GTTCTTCCEEECCS-SCCCCCGG--GGGCTTCCEEECCSSCCC----------CCGGGTTCTTCCE
T ss_pred             EECCCCCCCCchh-hcCCCCCCEEECCC-CccCcCcc--ccCCCCccEEEccCCcCC----------CChhhcCCCCCCE
Confidence            9999999988875 89999999999998 56777655  788999999999876431          1223778888999


Q ss_pred             EEeeccCCCCC
Q 038494          697 LEIQVQDAQML  707 (1209)
Q Consensus       697 L~l~~~~~~~~  707 (1209)
                      |+++.+.+..+
T Consensus       178 L~l~~n~l~~~  188 (308)
T 1h6u_A          178 LKADDNKISDI  188 (308)
T ss_dssp             EECCSSCCCCC
T ss_pred             EECCCCccCcC
Confidence            99887765433

>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=99.48  E-value=5.2e-13  Score=156.37  Aligned_cols=310  Identities=13%  Similarity=0.063  Sum_probs=180.0

Q ss_pred             cchhhHHHHHHHHHHHH-h----C--CCceEEEE--EcCCCChHHHHHHHHHHHHhhc---ccCC-EEEEEEcCCCcCHH
Q 038494          159 EAFDSRMKLFQDVVEAL-R----N--DKLNIIGV--HGMGGVGKTTLVKQIAKQVMED---KVFD-KVVMAEVTENPDVQ  225 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L-~----~--~~~~vi~I--~G~~GiGKTtLa~~~~~~~~~~---~~f~-~~~wv~~s~~~~~~  225 (1209)
                      ..|+||+++++.+.+++ .    .  .....+.|  +|++|+||||||+++++.....   ..|+ .++|+++....+..
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            57999999999999988 4    2  24567777  9999999999999999887542   1233 46888887778899


Q ss_pred             HHHHHHHHHhCCCCCCC-CChHHHHHHHHHHHh-cCCeEEEEEeCCCcccC--------ccccCCCCCCCCcccccccc-
Q 038494          226 KIQDKLASDLDLNFDLN-DSKPHRAKQLCQRLT-KEKRVLIILDNIWKKLG--------LEEIGIPFGDVDEKDRKQDL-  294 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~-~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~--------~~~l~~~~~~~~~~~~~~~~-  294 (1209)
                      .++..+++.++...... .........+.+.+. .+++++||+||++....        +..+...+....     ... 
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~-----~~~~  176 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIP-----SRDG  176 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSC-----CTTS
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcc-----cCCC
Confidence            99999999987653321 222344555555554 35799999999987532        111111110000     000 


Q ss_pred             -CCcEEEEeccchhhhcc-------c-CCcceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHhC------
Q 038494          295 -RRRTIILTSRSKHLLTN-------D-MNSQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKCG------  358 (1209)
Q Consensus       295 -~~s~ilvTtR~~~v~~~-------~-~~~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~------  358 (1209)
                       .+..+|+||+...+...       . ......+.+++++.++++++|...+.. .....-..+.+..|++.++      
T Consensus       177 ~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  256 (412)
T 1w5s_A          177 VNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGD  256 (412)
T ss_dssp             CCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSC
T ss_pred             CceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCC
Confidence             23447778875542210       0 011223999999999999999866431 0111223567889999999      


Q ss_pred             CChhHHHHHHHHH---h---cC---ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccC-
Q 038494          359 GLPVALSTVANAL---K---NK---KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFG-  428 (1209)
Q Consensus       359 glPLai~~~~~~l---~---~~---~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp-  428 (1209)
                      |.|..+..+....   .   +.   +.+.+..+......             ...+.-.+..||++ .+.++..++.+. 
T Consensus       257 G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------------~~~~~~~l~~l~~~-~~~~l~aia~l~~  322 (412)
T 1w5s_A          257 GSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA-------------ASIQTHELEALSIH-ELIILRLIAEATL  322 (412)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-------------------CCSSSSSCHH-HHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc-------------cchHHHHHHcCCHH-HHHHHHHHHHHHh
Confidence            9997655554322   1   11   22333333332110             22344567889987 788888888653 


Q ss_pred             -cCccccHHHHHHhhhhhc-cccccHHHHHHHHHHHHHHHHhcccccCC----CCCCceEehhHH
Q 038494          429 -EGTPIQVASLLRYGKGLF-KNVRTLENARNRVDALIDNLKASCLLLDG----DAEDEVKMHDVI  487 (1209)
Q Consensus       429 -~~~~i~~~~li~~~~g~i-~~~~~~~~~~~~~~~~~~~L~~~~ll~~~----~~~~~~~mHdlv  487 (1209)
                       .+..++...+...+..+. ............+.++++.|+..+++...    +..++|++|++.
T Consensus       323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~~g~~~~~~l~  387 (412)
T 1w5s_A          323 GGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSGRGMRGRTTLFRLA  387 (412)
T ss_dssp             TTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEECC-------CCEEEEC
T ss_pred             cCCCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEeecccCCCCCceeEEEeC
Confidence             223555544433221111 00000000123455678889999998642    234456666554

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

Probab=99.48  E-value=6.6e-14  Score=166.50  Aligned_cols=148  Identities=20%  Similarity=0.126  Sum_probs=96.2

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEc
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSF  619 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l  619 (1209)
                      +++|++|++++|  .+..+++..|.++++|++|+|++|.++.+++ ++.+++|++|++++|.++.+.   ..++|++|++
T Consensus        33 ~~~L~~L~Ls~n--~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~---~~~~L~~L~L  106 (487)
T 3oja_A           33 AWNVKELDLSGN--PLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL---VGPSIETLHA  106 (487)
T ss_dssp             GGGCCEEECCSS--CCCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSSEEEEEE---ECTTCCEEEC
T ss_pred             CCCccEEEeeCC--cCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCCcCCCCC---CCCCcCEEEC
Confidence            457777777776  3555665666777778888888777776554 777777888888777765542   2367777788


Q ss_pred             cCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhC-CCCCCCEEE
Q 038494          620 RYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELK-GLSKLTTLE  698 (1209)
Q Consensus       620 ~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~-~l~~L~~L~  698 (1209)
                      ++|.+..+|.  ..+++|++|++++ +.++..++..++++++|++|++++|....        .....+. .+++|+.|+
T Consensus       107 ~~N~l~~~~~--~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~--------~~~~~l~~~l~~L~~L~  175 (487)
T 3oja_A          107 ANNNISRVSC--SRGQGKKNIYLAN-NKITMLRDLDEGCRSRVQYLDLKLNEIDT--------VNFAELAASSDTLEHLN  175 (487)
T ss_dssp             CSSCCCCEEE--CCCSSCEEEECCS-SCCCSGGGBCGGGGSSEEEEECTTSCCCE--------EEGGGGGGGTTTCCEEE
T ss_pred             cCCcCCCCCc--cccCCCCEEECCC-CCCCCCCchhhcCCCCCCEEECCCCCCCC--------cChHHHhhhCCcccEEe
Confidence            7777776654  3467777777777 45666655556777777777777654211        0122232 456667766


Q ss_pred             eeccCC
Q 038494          699 IQVQDA  704 (1209)
Q Consensus       699 l~~~~~  704 (1209)
                      ++.+.+
T Consensus       176 Ls~N~l  181 (487)
T 3oja_A          176 LQYNFI  181 (487)
T ss_dssp             CTTSCC
T ss_pred             cCCCcc
Confidence            665443

>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=99.48  E-value=6.2e-13  Score=143.58  Aligned_cols=174  Identities=22%  Similarity=0.302  Sum_probs=144.7

Q ss_pred             CeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEecc
Q 038494          520 GAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLD  598 (1209)
Q Consensus       520 ~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~  598 (1209)
                      ..+++...++.+..+|.... ++++.|++.++  .+..++...|.++++|++|+|++|.++.++. .+..+++|++|+++
T Consensus        15 ~~~~l~~~~~~l~~~p~~~~-~~l~~L~L~~n--~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~   91 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGIP-ADTEKLDLQST--GLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLA   91 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCCC-TTCCEEECTTS--CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CCeEEecCCCCccccCCCCC-CCCCEEEccCC--CcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECC
Confidence            45678888888988887654 78999999998  4666777778999999999999999997755 58999999999999


Q ss_pred             CcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccc
Q 038494          599 WCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWD  675 (1209)
Q Consensus       599 ~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~  675 (1209)
                      +|.++.+  ..+..+++|++|++++|.++.+|.. +.++++|++|++++ +.++.+++..++.+++|++|++++|.... 
T Consensus        92 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-  169 (251)
T 3m19_A           92 NNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT-NQLQSIPAGAFDKLTNLQTLSLSTNQLQS-  169 (251)
T ss_dssp             TSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSC-
T ss_pred             CCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcC-CcCCccCHHHcCcCcCCCEEECCCCcCCc-
Confidence            9999887  5678999999999999999988876 58899999999999 67888888778999999999998875321 


Q ss_pred             cccCCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          676 KVEGGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       676 ~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                             .....+..+++|+.|+++.+...
T Consensus       170 -------~~~~~~~~l~~L~~L~l~~N~~~  192 (251)
T 3m19_A          170 -------VPHGAFDRLGKLQTITLFGNQFD  192 (251)
T ss_dssp             -------CCTTTTTTCTTCCEEECCSCCBC
T ss_pred             -------cCHHHHhCCCCCCEEEeeCCcee
Confidence                   11234677889999999887653

>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=99.47  E-value=3.6e-13  Score=147.96  Aligned_cols=194  Identities=20%  Similarity=0.262  Sum_probs=147.9

Q ss_pred             hcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~  593 (1209)
                      .+..++++.++++.+..++.  ...+++|++|++.+|  .+..++...|.++++|++|++++|.++.++ ..+.++.+|+
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 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC--EIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTC--CCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEECCCC--cCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCcccc
Confidence            45678999999998887764  347889999999888  466777777888999999999999988765 5788999999


Q ss_pred             EEeccCcccCCc--ccccCCCCCCEEEccCCCCCc--cchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCc----EE
Q 038494          594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQ--LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE----EL  665 (1209)
Q Consensus       594 ~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~----~L  665 (1209)
                      +|++++|.+..+  ..++++++|++|++++|.+..  +|..+.++++|++|++++ +.++.+++..+..+.+|+    +|
T Consensus       104 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~l~l~L  182 (276)
T 2z62_A          104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYCTDLRVLHQMPLLNLSL  182 (276)
T ss_dssp             EEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCS-SCCCEECGGGGHHHHTCTTCCEEE
T ss_pred             EEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCC-CCCCcCCHHHhhhhhhccccceee
Confidence            999999998877  368899999999999998875  678899999999999998 567777666566666666    78


Q ss_pred             ECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCccc--ccCCCCeEEEE
Q 038494          666 YMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDL--VFVELPRYRIC  722 (1209)
Q Consensus       666 ~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~  722 (1209)
                      +++++....         .....-...+|+.|+++.+.+..++...  ...+|+.|.+.
T Consensus       183 ~ls~n~l~~---------~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  232 (276)
T 2z62_A          183 DLSLNPMNF---------IQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLH  232 (276)
T ss_dssp             ECCSSCCCE---------ECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECC
T ss_pred             ecCCCcccc---------cCccccCCCcccEEECCCCceeecCHhHhcccccccEEEcc
Confidence            887764321         1112223347889999988887776652  45666666653

>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=99.47  E-value=3e-13  Score=155.14  Aligned_cols=292  Identities=14%  Similarity=0.132  Sum_probs=168.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-----cCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-----PDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-----~~~~~l~~~i  231 (1209)
                      ....|+||+++++.|.+ +..   +++.|+|++|+|||+|++++++....     ..+|+++...     .+....+..+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            35679999999999999 755   69999999999999999999987642     2578887642     3444555554


Q ss_pred             HHHhC--------------C----CCCC---C-CC---hHHHHHHHHHHHhc-C-CeEEEEEeCCCcccC-----ccccC
Q 038494          232 ASDLD--------------L----NFDL---N-DS---KPHRAKQLCQRLTK-E-KRVLIILDNIWKKLG-----LEEIG  279 (1209)
Q Consensus       232 ~~~l~--------------~----~~~~---~-~~---~~~~~~~l~~~l~~-~-k~~LlvlDdv~~~~~-----~~~l~  279 (1209)
                      .+.+.              .    ....   . ..   .......+.+.+.+ . ++++||+||++....     +..+.
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHH
Confidence            44331              0    0000   0 00   00122334444432 1 489999999987532     11111


Q ss_pred             CCCCCCCccccccccCCcEEEEeccchhhhcc---------cC-Cc-ceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcch
Q 038494          280 IPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN---------DM-NS-QKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQ  347 (1209)
Q Consensus       280 ~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~---------~~-~~-~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~  347 (1209)
                      ..+.+        ...+.++|+|+|.......         .. +. ...+.+.+|+.+|+.+++...+.. .....+  
T Consensus       162 ~~~~~--------~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~--  231 (357)
T 2fna_A          162 AYAYD--------NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD--  231 (357)
T ss_dssp             HHHHH--------HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC--
T ss_pred             HHHHH--------cCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc--
Confidence            11100        1146789999987542110         01 12 368999999999999999876531 111111  


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHhc-CChhHHHH-HHHHHhcCCCccccCccccceeeeEEec--ccCCchhHHHHHHH
Q 038494          348 PLADEIVGKCGGLPVALSTVANALKN-KKLPVWKD-ALTQLRNSNPREIHGMDANVCSSIELSY--NFLESDEAKSLFLL  423 (1209)
Q Consensus       348 ~~~~~i~~~~~glPLai~~~~~~l~~-~~~~~w~~-~~~~l~~~~~~~~~~~~~~v~~~l~~sy--~~L~~~~~k~c~~~  423 (1209)
                       . .+|++.++|+|+++..++..+.. .+...|.. +.+.....       ....+..   +.+  ..+++. .+..+..
T Consensus       232 -~-~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~l~~---~~~~~~~l~~~-~~~~l~~  298 (357)
T 2fna_A          232 -Y-EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKKL-------ILKEFEN---FLHGREIARKR-YLNIMRT  298 (357)
T ss_dssp             -H-HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-------HHHHHHH---HHTTCGGGHHH-HHHHHHH
T ss_pred             -H-HHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHHH-------HHHHHHH---HhhccccccHH-HHHHHHH
Confidence             1 79999999999999999877642 23333311 11110000       0001100   011  157776 8899999


Q ss_pred             hcccCcCccccHHHHHHhhhhhccccccHHHHHHHHHHHHHHHHhcccccCCCCCCceE-ehhHHHHHH
Q 038494          424 CTLFGEGTPIQVASLLRYGKGLFKNVRTLENARNRVDALIDNLKASCLLLDGDAEDEVK-MHDVIHVVA  491 (1209)
Q Consensus       424 ~s~fp~~~~i~~~~li~~~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~-mHdlv~~~~  491 (1209)
                      +|. .   . +...+.............    ...+..+++.|++.+++...+  ..|. -|++++++.
T Consensus       299 la~-g---~-~~~~l~~~~~~~~g~~~~----~~~~~~~L~~L~~~gli~~~~--~~y~f~~~~~~~~l  356 (357)
T 2fna_A          299 LSK-C---G-KWSDVKRALELEEGIEIS----DSEIYNYLTQLTKHSWIIKEG--EKYCPSEPLISLAF  356 (357)
T ss_dssp             HTT-C---B-CHHHHHHHHHHHHCSCCC----HHHHHHHHHHHHHTTSEEESS--SCEEESSHHHHHHT
T ss_pred             HHc-C---C-CHHHHHHHHHHhcCCCCC----HHHHHHHHHHHHhCCCEEecC--CEEEecCHHHHHhh
Confidence            887 2   2 444443221100000001    233456788899999997642  4576 588988864

>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=99.47  E-value=6.2e-13  Score=146.72  Aligned_cols=171  Identities=25%  Similarity=0.358  Sum_probs=144.8

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ..+++.+.+.++.+..++....+++|++|++++|.  +..++.  +.++++|++|++++|.++.+|. +..+++|++|++
T Consensus        45 l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~--l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L  119 (291)
T 1h6t_A           45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK--LTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSL  119 (291)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEEC
T ss_pred             cCcccEEEccCCCcccChhHhcCCCCCEEEccCCc--cCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEEEC
Confidence            45789999999999888877789999999999884  555555  7899999999999999998775 899999999999


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccc
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      ++|.++.+..+..+++|++|++++|.++.+ ..+.++++|++|++++ +.++.+++  +..+++|++|++++|...    
T Consensus       120 ~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~-N~l~~~~~--l~~l~~L~~L~L~~N~i~----  191 (291)
T 1h6t_A          120 EHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED-NQISDIVP--LAGLTKLQNLYLSKNHIS----  191 (291)
T ss_dssp             TTSCCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCS-SCCCCCGG--GTTCTTCCEEECCSSCCC----
T ss_pred             CCCcCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccC-Cccccchh--hcCCCccCEEECCCCcCC----
Confidence            999999888899999999999999999888 5789999999999999 56777765  889999999999887431    


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccCCCCC
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                            .+..+..+++|+.|+++.+.+...
T Consensus       192 ------~l~~l~~l~~L~~L~l~~n~i~~~  215 (291)
T 1h6t_A          192 ------DLRALAGLKNLDVLELFSQECLNK  215 (291)
T ss_dssp             ------BCGGGTTCTTCSEEEEEEEEEECC
T ss_pred             ------CChhhccCCCCCEEECcCCcccCC
Confidence                  134578889999999988765443

>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=99.47  E-value=1e-12  Score=144.37  Aligned_cols=171  Identities=22%  Similarity=0.262  Sum_probs=128.2

Q ss_pred             ccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCC
Q 038494          526 IPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLED  604 (1209)
Q Consensus       526 l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~  604 (1209)
                      -.+..+..+|... .+++++|+++++  .+..++...|.++++|++|++++|.++.++. .+..+++|++|++++|.++.
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-PFSTKNLDLSFN--PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS   90 (276)
T ss_dssp             CTTSCCSSCCSSS-CTTCCEEECTTC--CCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             ecCCCccccCCCC-CCCccEEECCCC--cccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCc
Confidence            3444556666644 267999999888  4666777677889999999999999987765 78899999999999999887


Q ss_pred             c--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccC-chhhcCCCCCcEEECCCCCCccccccCC
Q 038494          605 V--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIA-PNVISKFSRLEELYMGDSFPQWDKVEGG  680 (1209)
Q Consensus       605 l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~-~~~l~~L~~L~~L~l~~~~~~~~~~~~~  680 (1209)
                      +  ..+.++++|++|++++|.+..++. .++++++|++|++++ +.+..+. +..++++++|++|++++|...     ..
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 LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSNKIQ-----SI  164 (276)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS-SCCCCCCCCGGGGGCTTCCEEECCSSCCC-----EE
T ss_pred             cChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcC-CccceecCchhhccCCCCCEEECCCCCCC-----cC
Confidence            7  568899999999999998887765 588899999999998 5565532 445888999999999877431     11


Q ss_pred             CccchhhhCCCCCCC-EEEeeccCCC
Q 038494          681 SNASLAELKGLSKLT-TLEIQVQDAQ  705 (1209)
Q Consensus       681 ~~~~l~~L~~l~~L~-~L~l~~~~~~  705 (1209)
                      ....+..+..++.|. .|+++.+.+.
T Consensus       165 ~~~~~~~l~~L~~l~l~L~ls~n~l~  190 (276)
T 2z62_A          165 YCTDLRVLHQMPLLNLSLDLSLNPMN  190 (276)
T ss_dssp             CGGGGHHHHTCTTCCEEEECCSSCCC
T ss_pred             CHHHhhhhhhccccceeeecCCCccc
Confidence            223345555666555 6777666544

>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=99.47  E-value=3.3e-13  Score=144.61  Aligned_cols=135  Identities=18%  Similarity=0.243  Sum_probs=107.1

Q ss_pred             CccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcc-cccccc-cccCCCCCcEEeccC-cccCCc--
Q 038494          531 IQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIH-FSSLSS-SLGHLINLQTLCLDW-CQLEDV--  605 (1209)
Q Consensus       531 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~-i~~lp~-~i~~l~~L~~L~l~~-~~l~~l--  605 (1209)
                      +..+|.  -.+++++|++.++  .+..++...|.++++|++|++++|. ++.+|. .+..+++|++|++++ |.++.+  
T Consensus        23 l~~ip~--~~~~l~~L~l~~n--~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~   98 (239)
T 2xwt_C           23 IQRIPS--LPPSTQTLKLIET--HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDP   98 (239)
T ss_dssp             CSSCCC--CCTTCCEEEEESC--CCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECT
T ss_pred             ccccCC--CCCcccEEEEeCC--cceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCH
Confidence            566666  3458888888887  4667777778888899999999886 887765 688888999999988 788777  


Q ss_pred             ccccCCCCCCEEEccCCCCCccchhccCCCCCC---EEeccCCCCCcccCchhhcCCCCCc-EEECCCC
Q 038494          606 AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQ---LLDLSNCSSLVVIAPNVISKFSRLE-ELYMGDS  670 (1209)
Q Consensus       606 ~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~---~L~l~~~~~l~~~~~~~l~~L~~L~-~L~l~~~  670 (1209)
                      ..+.++++|++|++++|.++.+|. +..+++|+   +|+++++..++.+++..+..+++|+ +|+++++
T Consensus        99 ~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n  166 (239)
T 2xwt_C           99 DALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNN  166 (239)
T ss_dssp             TSEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSC
T ss_pred             HHhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCC
Confidence            467888889999998888888876 77888887   8888885477777776677788888 8877665

>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=99.46  E-value=3.7e-13  Score=144.19  Aligned_cols=193  Identities=12%  Similarity=0.210  Sum_probs=160.3

Q ss_pred             hcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecC-cccccccc-cccCCCCC
Q 038494          517 IQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSG-IHFSSLSS-SLGHLINL  592 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~-~~i~~lp~-~i~~l~~L  592 (1209)
                      .+..++++.+.++.+..++..  ..+++|++|++.+|. .+..++...|.++++|++|++++ |.++.+|. .+..+++|
T Consensus        29 ~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~-~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L  107 (239)
T 2xwt_C           29 LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDV-TLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLL  107 (239)
T ss_dssp             CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCS-SCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTC
T ss_pred             CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCC-CcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCC
Confidence            566899999999999988763  379999999999983 26778887889999999999998 99998874 78999999


Q ss_pred             cEEeccCcccCCcccccCCCCCC---EEEccCC-CCCccchh-ccCCCCCC-EEeccCCCCCcccCchhhcCCCCCcEEE
Q 038494          593 QTLCLDWCQLEDVAAIGQLKKLE---ILSFRYS-DIKQLPLE-IGQLAQLQ-LLDLSNCSSLVVIAPNVISKFSRLEELY  666 (1209)
Q Consensus       593 ~~L~l~~~~l~~l~~i~~L~~L~---~L~l~~~-~~~~lp~~-i~~L~~L~-~L~l~~~~~l~~~~~~~l~~L~~L~~L~  666 (1209)
                      ++|++++|.++.++.++.+.+|+   +|++++| .++.+|.. +.++++|+ +|++++ +.++.++...+.. ++|++|+
T Consensus       108 ~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~-n~l~~i~~~~~~~-~~L~~L~  185 (239)
T 2xwt_C          108 KFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN-NGFTSVQGYAFNG-TKLDAVY  185 (239)
T ss_dssp             CEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCS-CCCCEECTTTTTT-CEEEEEE
T ss_pred             CEEeCCCCCCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCC-CCCcccCHhhcCC-CCCCEEE
Confidence            99999999999886688888888   9999999 99988765 88999999 999998 6777888765555 8999999


Q ss_pred             CCCCC-CccccccCCCccchhhhCCC-CCCCEEEeeccCCCCCCcccccCCCCeEEE
Q 038494          667 MGDSF-PQWDKVEGGSNASLAELKGL-SKLTTLEIQVQDAQMLPQDLVFVELPRYRI  721 (1209)
Q Consensus       667 l~~~~-~~~~~~~~~~~~~l~~L~~l-~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  721 (1209)
                      +++|. ...        -....+..+ ++|+.|+++.+.+..++.. .+.+|+.|.+
T Consensus       186 L~~n~~l~~--------i~~~~~~~l~~~L~~L~l~~N~l~~l~~~-~~~~L~~L~l  233 (239)
T 2xwt_C          186 LNKNKYLTV--------IDKDAFGGVYSGPSLLDVSQTSVTALPSK-GLEHLKELIA  233 (239)
T ss_dssp             CTTCTTCCE--------ECTTTTTTCSBCCSEEECTTCCCCCCCCT-TCTTCSEEEC
T ss_pred             cCCCCCccc--------CCHHHhhccccCCcEEECCCCccccCChh-HhccCceeec
Confidence            98872 211        012346677 8999999999998887765 6677777764

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.46  E-value=1.1e-12  Score=143.38  Aligned_cols=175  Identities=23%  Similarity=0.280  Sum_probs=141.7

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEE
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTL  595 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L  595 (1209)
                      ....++.+.+.++.+..++....+++|++|++.+|.  +..++  .+.++++|++|++++|.++.+|. .++.+++|++|
T Consensus        39 ~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~--l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  114 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNK--LHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL  114 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSC--CCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             cccceeeeeeCCCCcccccccccCCCCcEEECCCCC--CCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEE
Confidence            356788999999988888877789999999999884  44443  46889999999999999998766 46899999999


Q ss_pred             eccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCC
Q 038494          596 CLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFP  672 (1209)
Q Consensus       596 ~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  672 (1209)
                      ++++|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++ +.++.+++..++.+++|++|++++|..
T Consensus       115 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~L~~N~l  193 (272)
T 3rfs_A          115 VLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSY-NQLQSLPEGVFDKLTQLKDLRLYQNQL  193 (272)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             ECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCC-CCcCccCHHHhcCCccCCEEECCCCcC
Confidence            9999998887  4478999999999999999988765 58899999999999 567788777678899999999988743


Q ss_pred             ccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          673 QWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       673 ~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      ..        .....+..+++|+.|+++.+..
T Consensus       194 ~~--------~~~~~~~~l~~L~~L~l~~N~~  217 (272)
T 3rfs_A          194 KS--------VPDGVFDRLTSLQYIWLHDNPW  217 (272)
T ss_dssp             SC--------CCTTTTTTCTTCCEEECCSSCB
T ss_pred             Cc--------cCHHHHhCCcCCCEEEccCCCc
Confidence            11        1123467788999999887654

>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=99.43  E-value=1.2e-12  Score=144.28  Aligned_cols=174  Identities=17%  Similarity=0.175  Sum_probs=147.8

Q ss_pred             hcCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcE
Q 038494          517 IQKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQT  594 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~  594 (1209)
                      ++..++.+.+.++.+..++.  ...+++|++|++.+|.  +..++..  ..+++|++|++++|.++.+|..+..+++|++
T Consensus        29 ~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~--~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~  104 (290)
T 1p9a_G           29 LPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE--LTKLQVD--GTLPVLGTLDLSHNQLQSLPLLGQTLPALTV  104 (290)
T ss_dssp             CCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC--CCEEECC--SCCTTCCEEECCSSCCSSCCCCTTTCTTCCE
T ss_pred             CCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc--cCcccCC--CCCCcCCEEECCCCcCCcCchhhccCCCCCE
Confidence            45789999999999887753  3478999999999984  5555543  6899999999999999999999999999999


Q ss_pred             EeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          595 LCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       595 L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      |++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ +.++.+++..+.++++|++|++++|.
T Consensus       105 L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L~~L~L~~N~  183 (290)
T 1p9a_G          105 LDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLLQENS  183 (290)
T ss_dssp             EECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCC-CcCCccCHHHhcCcCCCCEEECCCCc
Confidence            99999999988  5689999999999999999988766 57899999999999 67888988878899999999999875


Q ss_pred             CccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          672 PQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       672 ~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      ..         .....+..+.+|+.|.++++..
T Consensus       184 l~---------~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          184 LY---------TIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             CC---------CCCTTTTTTCCCSEEECCSCCB
T ss_pred             CC---------ccChhhcccccCCeEEeCCCCc
Confidence            32         2233455667899999988765

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.42  E-value=2.1e-13  Score=152.50  Aligned_cols=152  Identities=18%  Similarity=0.201  Sum_probs=99.7

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc--ccccccc-------CCCCCcEEeccCcccCCc--ccc
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS--SLSSSLG-------HLINLQTLCLDWCQLEDV--AAI  608 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~--~lp~~i~-------~l~~L~~L~l~~~~l~~l--~~i  608 (1209)
                      .++|+.|++.++.  . .+|..+...   |++|+++++.+.  .+|..+.       ++.+|++|++++|.++..  ..+
T Consensus        42 ~~~L~~l~l~~n~--l-~~p~~~~~~---L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  115 (312)
T 1wwl_A           42 GRSLEYLLKRVDT--E-ADLGQFTDI---IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPL  115 (312)
T ss_dssp             EEECTTHHHHCCT--T-CCCHHHHHH---HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCS
T ss_pred             CCCceeEeecccc--c-ccHHHHHHH---HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHH
Confidence            3456666666664  2 556554332   777778777775  3565555       678888888888887643  443


Q ss_pred             --cCCCCCCEEEccCCCCCccchhccCC-----CCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCC
Q 038494          609 --GQLKKLEILSFRYSDIKQLPLEIGQL-----AQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGS  681 (1209)
Q Consensus       609 --~~L~~L~~L~l~~~~~~~lp~~i~~L-----~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~  681 (1209)
                        +.+++|++|++++|.++.+|..++.+     ++|++|++++ +.+..+++..++++++|++|++++|....      .
T Consensus       116 ~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~------~  188 (312)
T 1wwl_A          116 LEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQ-AHSLNFSCEQVRVFPALSTLDLSDNPELG------E  188 (312)
T ss_dssp             SSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEES-CSCCCCCTTTCCCCSSCCEEECCSCTTCH------H
T ss_pred             HHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeC-CCCccchHHHhccCCCCCEEECCCCCcCc------c
Confidence              77888888888888877777666666     7888888887 56666766667788888888887763210      0


Q ss_pred             ccchhhh--CCCCCCCEEEeeccCC
Q 038494          682 NASLAEL--KGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       682 ~~~l~~L--~~l~~L~~L~l~~~~~  704 (1209)
                      ...+..+  ..+++|+.|+++.+.+
T Consensus       189 ~~~~~~~~~~~l~~L~~L~L~~N~l  213 (312)
T 1wwl_A          189 RGLISALCPLKFPTLQVLALRNAGM  213 (312)
T ss_dssp             HHHHHHSCTTSCTTCCEEECTTSCC
T ss_pred             hHHHHHHHhccCCCCCEEECCCCcC
Confidence            0112233  6677778777766544

>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=99.41  E-value=2.1e-12  Score=139.35  Aligned_cols=152  Identities=22%  Similarity=0.324  Sum_probs=135.0

Q ss_pred             hcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~  593 (1209)
                      ++..++++.+.++.+..++..  ..+++|++|++++|  .+..++...|.++++|++|++++|.++.+|. .+..+++|+
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 IPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN--QLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLD  110 (251)
T ss_dssp             CCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS--CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC--cCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCC
Confidence            457899999999999887653  47899999999998  4667778888999999999999999998875 678999999


Q ss_pred             EEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       594 ~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +|++++|.++.+  ..+.++++|++|++++|.++.+|. .++++++|++|++++ +.++.+++..+.++++|++|++++|
T Consensus       111 ~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          111 KLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPHGAFDRLGKLQTITLFGN  189 (251)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSC
T ss_pred             EEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCC-CcCCccCHHHHhCCCCCCEEEeeCC
Confidence            999999999988  447899999999999999998887 589999999999999 6788888877899999999999887


Q ss_pred             C
Q 038494          671 F  671 (1209)
Q Consensus       671 ~  671 (1209)
                      .
T Consensus       190 ~  190 (251)
T 3m19_A          190 Q  190 (251)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.39  E-value=3.2e-12  Score=135.50  Aligned_cols=146  Identities=22%  Similarity=0.279  Sum_probs=122.5

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~  600 (1209)
                      ..+...++.+..+|... .++|++|++++|  .+..++...|.++++|++|+|++|.++.+|. .+..+++|++|++++|
T Consensus        22 ~~v~c~~~~l~~ip~~~-~~~L~~L~Ls~n--~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           22 TTVDCRSKRHASVPAGI-PTNAQILYLHDN--QITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSS--CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEeEccCCCcCccCCCC-CCCCCEEEcCCC--ccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC
Confidence            45777777788888655 388999999988  4666767778899999999999999998875 4688999999999999


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      .++.+  ..+..+++|++|++++|.++.+|..+.++++|++|++++ +.++.+++..+..+++|+.|++.+|.
T Consensus        99 ~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           99 QLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             cCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCC-CcCCccCHHHHhCCCCCCEEEeeCCC
Confidence            98888  447889999999999999999999999999999999998 67888877778888889988887763

>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=99.39  E-value=4.1e-12  Score=140.11  Aligned_cols=178  Identities=22%  Similarity=0.295  Sum_probs=146.3

Q ss_pred             CCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCccc
Q 038494          528 YGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAA  607 (1209)
Q Consensus       528 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~  607 (1209)
                      ...+..+.....+++|++|++.++.  +..++.  +..+++|++|++++|.++.++. +..+++|++|++++|.++.++.
T Consensus        33 ~~~~~~~~~~~~l~~L~~L~l~~~~--i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~  107 (291)
T 1h6t_A           33 KKSVTDAVTQNELNSIDQIIANNSD--IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLSS  107 (291)
T ss_dssp             CSCTTSEECHHHHHTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGGG
T ss_pred             CCCcccccchhhcCcccEEEccCCC--cccChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCcCCCChh
Confidence            3344444444468999999999884  555543  6889999999999999999887 9999999999999999999988


Q ss_pred             ccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhh
Q 038494          608 IGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAE  687 (1209)
Q Consensus       608 i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~  687 (1209)
                      +..+++|++|++++|.++.++ .+..+++|++|++++ +.++.++  .++.+++|++|++++|...         . +..
T Consensus       108 l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~-n~l~~~~--~l~~l~~L~~L~L~~N~l~---------~-~~~  173 (291)
T 1h6t_A          108 LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGN-NKITDIT--VLSRLTKLDTLSLEDNQIS---------D-IVP  173 (291)
T ss_dssp             GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCS-SCCCCCG--GGGGCTTCSEEECCSSCCC---------C-CGG
T ss_pred             hccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccC-CcCCcch--hhccCCCCCEEEccCCccc---------c-chh
Confidence            999999999999999999874 689999999999999 5677663  3889999999999887431         1 122


Q ss_pred             hCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEc
Q 038494          688 LKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIG  724 (1209)
Q Consensus       688 L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  724 (1209)
                      +..+++|+.|+++.+.+..++.-..+.+|+.|.+...
T Consensus       174 l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          174 LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEE
T ss_pred             hcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCC
Confidence            7889999999999999888766557778888887644

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.39  E-value=1.2e-12  Score=146.39  Aligned_cols=106  Identities=22%  Similarity=0.276  Sum_probs=53.0

Q ss_pred             CCCCCcEEEecCcccc-cccccc--cCCCCCcEEeccCcccCCc-ccccCC-----CCCCEEEccCCCCCccc-hhccCC
Q 038494          565 GTEDLKVLSLSGIHFS-SLSSSL--GHLINLQTLCLDWCQLEDV-AAIGQL-----KKLEILSFRYSDIKQLP-LEIGQL  634 (1209)
Q Consensus       565 ~l~~Lr~L~L~~~~i~-~lp~~i--~~l~~L~~L~l~~~~l~~l-~~i~~L-----~~L~~L~l~~~~~~~lp-~~i~~L  634 (1209)
                      ++++|++|++++|.++ .+|..+  +.+++|++|++++|.++.. ..++.+     ++|++|++++|.+..+| ..++++
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l  172 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVF  172 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccC
Confidence            4555555555555555 345443  5555555555555555444 333333     55555555555555444 445555


Q ss_pred             CCCCEEeccCCCCCcc--cCch-hhcCCCCCcEEECCCC
Q 038494          635 AQLQLLDLSNCSSLVV--IAPN-VISKFSRLEELYMGDS  670 (1209)
Q Consensus       635 ~~L~~L~l~~~~~l~~--~~~~-~l~~L~~L~~L~l~~~  670 (1209)
                      ++|++|++++|.....  .+.. .++++++|++|++++|
T Consensus       173 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N  211 (312)
T 1wwl_A          173 PALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA  211 (312)
T ss_dssp             SSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTS
T ss_pred             CCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCC
Confidence            5555555555321111  1111 0145555555555554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.39  E-value=3.1e-12  Score=139.81  Aligned_cols=154  Identities=22%  Similarity=0.335  Sum_probs=135.7

Q ss_pred             hhhcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCc
Q 038494          515 KIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQ  593 (1209)
Q Consensus       515 ~~~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~  593 (1209)
                      ......++++.+.++.+..++....+++|++|++.+|  .+..++...|.++++|++|++++|.++.+|. .++.+++|+
T Consensus        59 l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n--~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  136 (272)
T 3rfs_A           59 IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGN--QLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLT  136 (272)
T ss_dssp             GGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTS--CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             cccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCC--ccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCC
Confidence            3446789999999999988876678999999999998  4667888888999999999999999998876 479999999


Q ss_pred             EEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       594 ~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +|++++|.++.+  ..++++++|++|++++|.++.+|.. ++++++|++|++++ +.+..+++..++++++|+.|++++|
T Consensus       137 ~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N  215 (272)
T 3rfs_A          137 YLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRLTSLQYIWLHDN  215 (272)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCC-CcCCccCHHHHhCCcCCCEEEccCC
Confidence            999999999888  4478999999999999999988765 68999999999999 5788888877899999999999886


Q ss_pred             C
Q 038494          671 F  671 (1209)
Q Consensus       671 ~  671 (1209)
                      .
T Consensus       216 ~  216 (272)
T 3rfs_A          216 P  216 (272)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.38  E-value=3.2e-12  Score=134.50  Aligned_cols=146  Identities=21%  Similarity=0.254  Sum_probs=113.7

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~  600 (1209)
                      +.+...++.+..+|.... ++++.|++.+|  .+..++...|..+++|++|+|++|.++.+ |..|..+.+|++|++++|
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 NIVDCRGKGLTEIPTNLP-ETITEIRLEQN--TIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC-TTCCEEECCSS--CCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCccC-cCCCEEECCCC--cCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            356667777777776543 68888888887  46667777778888888888888888866 667888888888888888


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      .++.+  ..+.++++|++|++++|.++.+ |..+..+++|++|++++ +.++.+++..+..+++|++|++++|.
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYD-NKLQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCC-CcCCEECHHHHhCCCCCCEEEeCCCC
Confidence            88877  3467888888888888888876 45678888888888888 66777777667778888888887653

>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=99.38  E-value=2.5e-12  Score=155.74  Aligned_cols=172  Identities=24%  Similarity=0.353  Sum_probs=146.5

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ....++.+.+.++.+..++....+++|+.|++++|.  +..+++  +..+++|+.|+|++|.+..+| .+..+++|++|+
T Consensus        41 ~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~  115 (605)
T 1m9s_A           41 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK--LTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLS  115 (605)
T ss_dssp             HHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSC--CCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEE
T ss_pred             cCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCC--CCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEE
Confidence            345788899999999988877789999999999984  555555  689999999999999999887 689999999999


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK  676 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~  676 (1209)
                      |++|.+..++.+..+++|+.|++++|.+..+ ..+..+++|++|++++ +.+..+++  +..+++|+.|++++|.+.   
T Consensus       116 Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~-N~l~~~~~--l~~l~~L~~L~Ls~N~i~---  188 (605)
T 1m9s_A          116 LEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED-NQISDIVP--LAGLTKLQNLYLSKNHIS---  188 (605)
T ss_dssp             CTTSCCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCS-SCCCCCGG--GTTCTTCCEEECCSSCCC---
T ss_pred             ecCCCCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcC-CcCCCchh--hccCCCCCEEECcCCCCC---
Confidence            9999999998899999999999999999988 5789999999999999 56777765  889999999999887431   


Q ss_pred             ccCCCccchhhhCCCCCCCEEEeeccCCCCC
Q 038494          677 VEGGSNASLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       677 ~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                             .+..+..+++|+.|+++.+.+...
T Consensus       189 -------~l~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          189 -------DLRALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             -------BCGGGTTCTTCSEEECCSEEEECC
T ss_pred             -------CChHHccCCCCCEEEccCCcCcCC
Confidence                   134688899999999988766443

>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=99.35  E-value=6.3e-12  Score=132.23  Aligned_cols=146  Identities=17%  Similarity=0.263  Sum_probs=110.0

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCccccc-ChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccC
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEI-SHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDW  599 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~  599 (1209)
                      +.+.++++.+..+|... .+.++.|++.+|.  +..+ +...|.++++|++|+|++|.++.++. .+..+.+|++|++++
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-PQYTAELRLNNNE--FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC--CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCc--CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            46777788887777644 3566788888773  4444 34556788888888888888887765 688888888888888


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      |.++.+  ..+.++++|++|++++|.++.+ |..+.++++|++|++++ +.++.+++..+..+++|++|++++|.
T Consensus        91 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A           91 NRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYD-NQITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTT-SCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCC-CcCCEECHHHhcCCCCCCEEEecCcC
Confidence            888777  4478888888888888888866 55678888888888888 56777766667778888888877653

>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=99.34  E-value=2.1e-12  Score=146.51  Aligned_cols=132  Identities=17%  Similarity=0.164  Sum_probs=80.8

Q ss_pred             hcCC--CCCcEEEecCcccccccccccCCCCCcEEeccCcccCC--c-ccccCCCCCCEEEccCCCCC-ccchhccCCCC
Q 038494          563 FEGT--EDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED--V-AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQ  636 (1209)
Q Consensus       563 ~~~l--~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~--l-~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~  636 (1209)
                      +..+  +.+++|+++++.+...+..+..+.+|++|++++|.+..  + ..+..+++|++|++++|.+. ..|..+.++++
T Consensus        64 ~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~  143 (336)
T 2ast_B           64 TGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSN  143 (336)
T ss_dssp             HHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTT
T ss_pred             HHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCC
Confidence            3444  67777777777776665556677777777777777653  3 45667777777777777666 45666777777


Q ss_pred             CCEEeccCCCCCccc-CchhhcCCCCCcEEECCCC-CCccccccCCCccchhhhCCCC-CCCEEEeec
Q 038494          637 LQLLDLSNCSSLVVI-APNVISKFSRLEELYMGDS-FPQWDKVEGGSNASLAELKGLS-KLTTLEIQV  701 (1209)
Q Consensus       637 L~~L~l~~~~~l~~~-~~~~l~~L~~L~~L~l~~~-~~~~~~~~~~~~~~l~~L~~l~-~L~~L~l~~  701 (1209)
                      |++|++++|..++.. .+..+.++++|++|++++| ...       .......+..++ +|+.|++++
T Consensus       144 L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~-------~~~~~~~~~~l~~~L~~L~l~~  204 (336)
T 2ast_B          144 LVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFT-------EKHVQVAVAHVSETITQLNLSG  204 (336)
T ss_dssp             CSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCC-------HHHHHHHHHHSCTTCCEEECCS
T ss_pred             CCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcC-------hHHHHHHHHhcccCCCEEEeCC
Confidence            777777776455431 1223566777777777665 211       011123345555 666666654

>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=99.33  E-value=2e-12  Score=146.79  Aligned_cols=250  Identities=17%  Similarity=0.111  Sum_probs=165.8

Q ss_pred             CCCcEEEecCcccccccccccCC--CCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCc--cchhccCCCCCCEEe
Q 038494          567 EDLKVLSLSGIHFSSLSSSLGHL--INLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQ--LPLEIGQLAQLQLLD  641 (1209)
Q Consensus       567 ~~Lr~L~L~~~~i~~lp~~i~~l--~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~L~  641 (1209)
                      ..++.++++++.+.  |..+..+  .++++|++++|.+... ..+.++++|++|++++|.+..  +|..+.++++|++|+
T Consensus        47 ~~~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~  124 (336)
T 2ast_B           47 SLWQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLS  124 (336)
T ss_dssp             TTSSEEECTTCBCC--HHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEE
T ss_pred             hhheeeccccccCC--HHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEe
Confidence            34788999988776  5667777  8999999999998877 778899999999999998773  788899999999999


Q ss_pred             ccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeecc-CCCCCCcccccCCCCeEE
Q 038494          642 LSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQ-DAQMLPQDLVFVELPRYR  720 (1209)
Q Consensus       642 l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~-~~~~~~~~~~~~~L~~L~  720 (1209)
                      +++| .+....+..++++++|++|++++|..    .  ........+..+++|+.|+++++ .+..              
T Consensus       125 L~~~-~l~~~~~~~l~~~~~L~~L~L~~~~~----l--~~~~l~~~~~~~~~L~~L~l~~~~~l~~--------------  183 (336)
T 2ast_B          125 LEGL-RLSDPIVNTLAKNSNLVRLNLSGCSG----F--SEFALQTLLSSCSRLDELNLSWCFDFTE--------------  183 (336)
T ss_dssp             CTTC-BCCHHHHHHHTTCTTCSEEECTTCBS----C--CHHHHHHHHHHCTTCCEEECCCCTTCCH--------------
T ss_pred             CcCc-ccCHHHHHHHhcCCCCCEEECCCCCC----C--CHHHHHHHHhcCCCCCEEcCCCCCCcCh--------------
Confidence            9996 45544445588999999999988721    0  11112334677889999999776 3321              


Q ss_pred             EEEcccCccccCCCCCccEEEEecCCCcchhhhHHHHHHHhc-ccceeeecccc-ccc--cccccccCCCCccCCcEEEE
Q 038494          721 ICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLK-LTEDIRLEELT-GVQ--NVVHELDDGEGFPRLKHLWV  796 (1209)
Q Consensus       721 l~~~~~~~~~~~~~~~~~~l~l~~l~~~~~~~~~~~~~~~~~-~L~~L~l~~~~-~~~--~~~~~l~~~~~l~~L~~L~l  796 (1209)
                                                     .........++ +|+.|++.++. ...  .+...   +..+++|++|++
T Consensus       184 -------------------------------~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~---~~~~~~L~~L~l  229 (336)
T 2ast_B          184 -------------------------------KHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL---VRRCPNLVHLDL  229 (336)
T ss_dssp             -------------------------------HHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHH---HHHCTTCSEEEC
T ss_pred             -------------------------------HHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHH---HhhCCCCCEEeC
Confidence                                           00111222345 67777776653 121  11111   346788999999


Q ss_pred             ecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhc-cccc
Q 038494          797 ERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNL-LRLQ  875 (1209)
Q Consensus       797 ~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l-~~L~  875 (1209)
                      ++|..+...    .......+++|+.|++++|..+.....   .....+++|+.|++++|  +..-    .+..+ .+|+
T Consensus       230 ~~~~~l~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~l~~~~~L~~L~l~~~--i~~~----~~~~l~~~l~  296 (336)
T 2ast_B          230 SDSVMLKND----CFQEFFQLNYLQHLSLSRCYDIIPETL---LELGEIPTLKTLQVFGI--VPDG----TLQLLKEALP  296 (336)
T ss_dssp             TTCTTCCGG----GGGGGGGCTTCCEEECTTCTTCCGGGG---GGGGGCTTCCEEECTTS--SCTT----CHHHHHHHST
T ss_pred             CCCCcCCHH----HHHHHhCCCCCCEeeCCCCCCCCHHHH---HHHhcCCCCCEEeccCc--cCHH----HHHHHHhhCc
Confidence            888743211    111234578999999998864433222   12245899999999998  3322    22223 3466


Q ss_pred             EEEEeccccccc
Q 038494          876 KVKVASCNKLEM  887 (1209)
Q Consensus       876 ~L~l~~c~~l~~  887 (1209)
                      .|+++ |+.++.
T Consensus       297 ~L~l~-~n~l~~  307 (336)
T 2ast_B          297 HLQIN-CSHFTT  307 (336)
T ss_dssp             TSEES-CCCSCC
T ss_pred             ceEEe-cccCcc
Confidence            66665 444443

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

Probab=99.32  E-value=8.4e-12  Score=128.93  Aligned_cols=144  Identities=19%  Similarity=0.257  Sum_probs=79.6

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccc-ccccccCCCCCcEEec
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSS-LSSSLGHLINLQTLCL  597 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~-lp~~i~~l~~L~~L~l  597 (1209)
                      .+++++.+.++.+..++....+++|++|++.+|.  +..++  .+..+++|++|++++|.++. .|..++.+++|++|++
T Consensus        44 ~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~--~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~L  119 (197)
T 4ezg_A           44 NSLTYITLANINVTDLTGIEYAHNIKDLTINNIH--ATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDI  119 (197)
T ss_dssp             HTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCC--CSCCG--GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEEC
T ss_pred             CCccEEeccCCCccChHHHhcCCCCCEEEccCCC--CCcch--hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEe
Confidence            3556666666666655544455666666665552  22222  24556666666666666553 4555566666666666


Q ss_pred             cCcccCC--cccccCCCCCCEEEccCCC-CCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          598 DWCQLED--VAAIGQLKKLEILSFRYSD-IKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       598 ~~~~l~~--l~~i~~L~~L~~L~l~~~~-~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++|.+..  +..++++++|++|++++|. +..+| .+.++++|++|++++ +.++.++  .+..+++|++|+++++
T Consensus       120 s~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~-n~i~~~~--~l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          120 SHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQF-DGVHDYR--GIEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             CSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTT-BCCCCCT--TGGGCSSCCEEEECBC
T ss_pred             cCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCC-CCCcChH--HhccCCCCCEEEeeCc
Confidence            6666554  2455566666666666664 55554 455566666666655 3344443  2555555555555543

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

Probab=99.32  E-value=9.1e-12  Score=148.01  Aligned_cols=168  Identities=18%  Similarity=0.186  Sum_probs=134.5

Q ss_pred             cCCeEEEEccCCCCccCCC--cCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEE
Q 038494          518 QKGAIAISIPYGDIQELPE--RLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTL  595 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~--~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L  595 (1209)
                      .++++++.++++.+..++.  ...+++|++|++++|.  +..+++  |..+++|++|+|++|.++.+|..    ++|++|
T Consensus        33 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~--l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~~----~~L~~L  104 (487)
T 3oja_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV--LYETLD--LESLSTLRTLDLNNNYVQELLVG----PSIETL  104 (487)
T ss_dssp             GGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSC--CEEEEE--CTTCTTCCEEECCSSEEEEEEEC----TTCCEE
T ss_pred             CCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCC--CCCCcc--cccCCCCCEEEecCCcCCCCCCC----CCcCEE
Confidence            3479999999999988764  3479999999999984  444444  78999999999999999987743    899999


Q ss_pred             eccCcccCCcccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhc-CCCCCcEEECCCCCCc
Q 038494          596 CLDWCQLEDVAAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVIS-KFSRLEELYMGDSFPQ  673 (1209)
Q Consensus       596 ~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~-~L~~L~~L~l~~~~~~  673 (1209)
                      ++++|.+..+.. ..+++|++|++++|.++.+ |..++++++|++|++++ +.++..++..+. .+++|++|++++|.+.
T Consensus       105 ~L~~N~l~~~~~-~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~  182 (487)
T 3oja_A          105 HAANNNISRVSC-SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKL-NEIDTVNFAELAASSDTLEHLNLQYNFIY  182 (487)
T ss_dssp             ECCSSCCCCEEE-CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTT-SCCCEEEGGGGGGGTTTCCEEECTTSCCC
T ss_pred             ECcCCcCCCCCc-cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCC-CCCCCcChHHHhhhCCcccEEecCCCccc
Confidence            999999988722 2468999999999999977 55789999999999999 567766555565 7999999999987532


Q ss_pred             cccccCCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          674 WDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       674 ~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                      .          +.....+++|+.|+++.+.+.
T Consensus       183 ~----------~~~~~~l~~L~~L~Ls~N~l~  204 (487)
T 3oja_A          183 D----------VKGQVVFAKLKTLDLSSNKLA  204 (487)
T ss_dssp             E----------EECCCCCTTCCEEECCSSCCC
T ss_pred             c----------ccccccCCCCCEEECCCCCCC
Confidence            1          123345788999998877654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.31  E-value=9.8e-12  Score=134.73  Aligned_cols=164  Identities=20%  Similarity=0.210  Sum_probs=124.8

Q ss_pred             EEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccC
Q 038494          524 ISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLE  603 (1209)
Q Consensus       524 l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~  603 (1209)
                      +.+..+.+..++....+++|++|++.++.  +..++  .+..+++|++|++++|.++.+|. +..+++|++|++++|.++
T Consensus        24 l~l~~~~i~~~~~~~~l~~L~~L~l~~n~--i~~l~--~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N~l~   98 (263)
T 1xeu_A           24 QNLGKQSVTDLVSQKELSGVQNFNGDNSN--IQSLA--GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNRNRLK   98 (263)
T ss_dssp             HHHTCSCTTSEECHHHHTTCSEEECTTSC--CCCCT--TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSCCS
T ss_pred             HHhcCCCcccccchhhcCcCcEEECcCCC--cccch--HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCCCccC
Confidence            33455555556544567888888888873  45555  36788899999999999888887 888999999999999888


Q ss_pred             CcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCcc
Q 038494          604 DVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNA  683 (1209)
Q Consensus       604 ~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~  683 (1209)
                      .++.+.. .+|++|++++|.++.+| .+.++++|++|++++ +.++.++  .++.+++|++|++++|.+..         
T Consensus        99 ~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~-N~i~~~~--~l~~l~~L~~L~L~~N~i~~---------  164 (263)
T 1xeu_A           99 NLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRN-NKLKSIV--MLGFLSKLEVLDLHGNEITN---------  164 (263)
T ss_dssp             CCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTT-SCCCBCG--GGGGCTTCCEEECTTSCCCB---------
T ss_pred             CcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECCC-CcCCCCh--HHccCCCCCEEECCCCcCcc---------
Confidence            8755555 88999999999888875 588899999999988 5677764  37888999999988764311         


Q ss_pred             chhhhCCCCCCCEEEeeccCCCCC
Q 038494          684 SLAELKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       684 ~l~~L~~l~~L~~L~l~~~~~~~~  707 (1209)
                       +..+..+++|+.|+++.+.....
T Consensus       165 -~~~l~~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          165 -TGGLTRLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             -CTTSTTCCCCCEEEEEEEEEECC
T ss_pred             -hHHhccCCCCCEEeCCCCcccCC
Confidence             14577788889999888765433

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

Probab=99.30  E-value=2.3e-11  Score=126.96  Aligned_cols=144  Identities=23%  Similarity=0.333  Sum_probs=114.8

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcc
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~  601 (1209)
                      .+...++.+..+|... .+++++|++.++  .+..++...|.++++|++|++++|.++.+|. .+..+++|++|++++|.
T Consensus        11 ~v~c~~~~l~~~p~~~-~~~l~~L~l~~n--~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~   87 (208)
T 2o6s_A           11 TVECYSQGRTSVPTGI-PAQTTYLDLETN--SLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ   87 (208)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCSEEECCSS--CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCccCCCCCC-CCCCcEEEcCCC--ccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCc
Confidence            4556666677776544 468899999888  4556777778889999999999998888776 46788999999999998


Q ss_pred             cCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          602 LEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       602 l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ +.++.+++..+.++++|++|++++|
T Consensus        88 l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N  158 (208)
T 2o6s_A           88 LQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRLTSLQYIWLHDN  158 (208)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSC
T ss_pred             CCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCC-CccceeCHHHhccCCCccEEEecCC
Confidence            8877  3478889999999999888887765 68888999999988 5677777766788888888888775

>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=99.30  E-value=2.4e-11  Score=138.11  Aligned_cols=123  Identities=21%  Similarity=0.203  Sum_probs=52.7

Q ss_pred             cCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-cccc-cccCCCCCcE-EeccCcccC
Q 038494          527 PYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-SLSS-SLGHLINLQT-LCLDWCQLE  603 (1209)
Q Consensus       527 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-~lp~-~i~~l~~L~~-L~l~~~~l~  603 (1209)
                      +++.+..+|... .+++++|++++|  .+..++...|.++++|++|+|++|.+. .+|. .|.++.+|+. +.+.+|.++
T Consensus        17 ~~~~Lt~iP~~l-~~~l~~L~Ls~N--~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~   93 (350)
T 4ay9_X           17 QESKVTEIPSDL-PRNAIELRFVLT--KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL   93 (350)
T ss_dssp             ESTTCCSCCTTC-CTTCSEEEEESC--CCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCC
T ss_pred             cCCCCCccCcCc-CCCCCEEEccCC--cCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCccc
Confidence            344444454432 234555555544  344444444455555555555555442 2332 3444444433 233334444


Q ss_pred             Cc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccC
Q 038494          604 DV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIA  652 (1209)
Q Consensus       604 ~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~  652 (1209)
                      .+  ..+..+++|++|++++|.++.+|.. +....++.+|++.+++.+..++
T Consensus        94 ~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~  145 (350)
T 4ay9_X           94 YINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIE  145 (350)
T ss_dssp             EECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEEC
T ss_pred             ccCchhhhhccccccccccccccccCCchhhcccchhhhhhhcccccccccc
Confidence            44  3344444555555544444444321 2223334444444433343333

>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=99.29  E-value=1.7e-11  Score=148.53  Aligned_cols=179  Identities=22%  Similarity=0.291  Sum_probs=146.3

Q ss_pred             cCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcc
Q 038494          527 PYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVA  606 (1209)
Q Consensus       527 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~  606 (1209)
                      ..+.+..+.....+++|+.|++.++.  +..++.  +..+++|+.|+|++|.+..+|. +..+++|++|+|++|.+..++
T Consensus        29 ~~~~i~~~~~~~~L~~L~~L~l~~n~--i~~l~~--l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~  103 (605)
T 1m9s_A           29 KKKSVTDAVTQNELNSIDQIIANNSD--IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDENKIKDLS  103 (605)
T ss_dssp             TCSCTTSEECHHHHTTCCCCBCTTCC--CCCCTT--GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCCT
T ss_pred             cCCCcccccchhcCCCCCEEECcCCC--CCCChH--HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCCCCCCCh
Confidence            33444444444568899999998874  555553  6889999999999999999887 999999999999999999998


Q ss_pred             cccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchh
Q 038494          607 AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLA  686 (1209)
Q Consensus       607 ~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~  686 (1209)
                      .+..+++|++|++++|.+..+| .+..+++|+.|++++ +.+..+  ..++.+++|+.|++++|.+.         . +.
T Consensus       104 ~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~-N~l~~l--~~l~~l~~L~~L~Ls~N~l~---------~-~~  169 (605)
T 1m9s_A          104 SLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGN-NKITDI--TVLSRLTKLDTLSLEDNQIS---------D-IV  169 (605)
T ss_dssp             TSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSEEECCS-SCCCCC--GGGGSCTTCSEEECCSSCCC---------C-CG
T ss_pred             hhccCCCCCEEEecCCCCCCCc-cccCCCccCEEECCC-CccCCc--hhhcccCCCCEEECcCCcCC---------C-ch
Confidence            9999999999999999999875 589999999999999 567766  33899999999999887431         1 11


Q ss_pred             hhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEc
Q 038494          687 ELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIG  724 (1209)
Q Consensus       687 ~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  724 (1209)
                      .+..+++|+.|+++.+.+..++.-..+.+|+.|.+..+
T Consensus       170 ~l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          170 PLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQ  207 (605)
T ss_dssp             GGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEECCSE
T ss_pred             hhccCCCCCEEECcCCCCCCChHHccCCCCCEEEccCC
Confidence            27889999999999999887765456778888877543

>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=99.28  E-value=1.5e-11  Score=126.98  Aligned_cols=149  Identities=18%  Similarity=0.240  Sum_probs=118.2

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCC--cccccCCCCCCE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED--VAAIGQLKKLEI  616 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~--l~~i~~L~~L~~  616 (1209)
                      .+++|++|++.++.  +..++  .+..+++|++|++++|.++.++ .+..+++|++|++++|.++.  +..++++++|++
T Consensus        42 ~l~~L~~L~l~~n~--i~~l~--~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           42 QMNSLTYITLANIN--VTDLT--GIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEEESSC--CSCCT--TGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEeccCCC--ccChH--HHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            57889999998874  44555  3678899999999999887765 68889999999999999886  378889999999


Q ss_pred             EEccCCCCCc-cchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCC
Q 038494          617 LSFRYSDIKQ-LPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLT  695 (1209)
Q Consensus       617 L~l~~~~~~~-lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~  695 (1209)
                      |++++|.++. .|..++++++|++|++++|..+..++  .+..+++|++|++++|...          .+..+..+++|+
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~--~l~~l~~L~~L~l~~n~i~----------~~~~l~~l~~L~  184 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM--PLKTLPELKSLNIQFDGVH----------DYRGIEDFPKLN  184 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG--GGGGCSSCCEEECTTBCCC----------CCTTGGGCSSCC
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH--hhcCCCCCCEEECCCCCCc----------ChHHhccCCCCC
Confidence            9999998884 67778999999999999965577775  3888999999999876421          122567788899


Q ss_pred             EEEeeccCC
Q 038494          696 TLEIQVQDA  704 (1209)
Q Consensus       696 ~L~l~~~~~  704 (1209)
                      .|+++++.+
T Consensus       185 ~L~l~~N~i  193 (197)
T 4ezg_A          185 QLYAFSQTI  193 (197)
T ss_dssp             EEEECBC--
T ss_pred             EEEeeCccc
Confidence            999887764

>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=99.27  E-value=3.4e-11  Score=136.87  Aligned_cols=119  Identities=13%  Similarity=0.112  Sum_probs=70.0

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCC-c--ccccCCCCCCE-EE
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLED-V--AAIGQLKKLEI-LS  618 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~-l--~~i~~L~~L~~-L~  618 (1209)
                      ++++.+++  ....+|..+   .++++.|+|++|.|+.+|. +|.++++|++|+|++|.+.+ +  ..|.++.+|+. +.
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~   86 (350)
T 4ay9_X           12 RVFLCQES--KVTEIPSDL---PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI   86 (350)
T ss_dssp             TEEEEEST--TCCSCCTTC---CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEE
T ss_pred             CEEEecCC--CCCccCcCc---CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhc
Confidence            44455444  345555543   2466777777777777765 46777777777777777533 3  34666666654 44


Q ss_pred             ccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          619 FRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       619 l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      +.+|+++.+| ..+..+++|++|++++ +.+..+++..+....++..|++.
T Consensus        87 ~~~N~l~~l~~~~f~~l~~L~~L~l~~-n~l~~~~~~~~~~~~~l~~l~l~  136 (350)
T 4ay9_X           87 EKANNLLYINPEAFQNLPNLQYLLISN-TGIKHLPDVHKIHSLQKVLLDIQ  136 (350)
T ss_dssp             EEETTCCEECTTSBCCCTTCCEEEEEE-ECCSSCCCCTTCCBSSCEEEEEE
T ss_pred             ccCCcccccCchhhhhccccccccccc-cccccCCchhhcccchhhhhhhc
Confidence            4456666664 3456677777777776 45555554434444455555543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.26  E-value=3e-11  Score=130.89  Aligned_cols=145  Identities=24%  Similarity=0.299  Sum_probs=127.6

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          517 IQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ....++++.+.++.+..++....+++|++|++++|  .+..++.  +.++++|++|++++|.++.+|....  .+|++|+
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 ELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHN--QISDLSP--LKDLTKLEELSVNRNRLKNLNGIPS--ACLSRLF  112 (263)
T ss_dssp             HHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCSSCCEEECCSSCCSCCTTCCC--SSCCEEE
T ss_pred             hcCcCcEEECcCCCcccchHHhhCCCCCEEECCCC--ccCCChh--hccCCCCCEEECCCCccCCcCcccc--CcccEEE
Confidence            35678999999999999986668999999999998  4666665  7899999999999999999887444  9999999


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      +++|.++.+..+.++++|++|++++|.++.+| .+..+++|++|++++ +.++..  ..+..+++|+.|+++++.
T Consensus       113 L~~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~-N~i~~~--~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          113 LDNNELRDTDSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHG-NEITNT--GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             CCSSCCSBSGGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTT-SCCCBC--TTSTTCCCCCEEEEEEEE
T ss_pred             ccCCccCCChhhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCC-CcCcch--HHhccCCCCCEEeCCCCc
Confidence            99999999988999999999999999999986 689999999999999 567766  348899999999998764

>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=99.25  E-value=6.7e-11  Score=136.79  Aligned_cols=287  Identities=14%  Similarity=0.067  Sum_probs=172.4

Q ss_pred             cchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcc----c--CCEEEEEEcCCCc-CHHHH
Q 038494          159 EAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----V--FDKVVMAEVTENP-DVQKI  227 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~--f~~~~wv~~s~~~-~~~~l  227 (1209)
                      ..|+||+++++.+.+++.    ....+.+.|+|++|+|||++|+.+++......    .  ...++|+++.... +...+
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            679999999999998775    33456899999999999999999998874321    1  3467888887766 78888


Q ss_pred             HHHHHHHh-CCCCCCC-CChHHHHHHHHHHHhcCCeEEEEEeCCCcccC--cccc-CCCCCCCCccccccccCCcEEEEe
Q 038494          228 QDKLASDL-DLNFDLN-DSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG--LEEI-GIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       228 ~~~i~~~l-~~~~~~~-~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~--~~~l-~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                      +..+++.+ +...... .........+...+.. ++.+||+||++....  +... ...+....        .+..+|+|
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~vlilDEi~~l~~~~~~~~~l~~l~~~~--------~~~~iI~~  170 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN-IRAIIYLDEVDTLVKRRGGDIVLYQLLRSD--------ANISVIMI  170 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS-SCEEEEEETTHHHHHSTTSHHHHHHHHTSS--------SCEEEEEE
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc-CCCEEEEECHHHhccCCCCceeHHHHhcCC--------cceEEEEE
Confidence            88888887 3222111 1124556667777764 444999999987632  1111 11111111        46778888


Q ss_pred             ccchhhhc----cc-CCcceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHhC---CChh-HHHHHHHHH-
Q 038494          303 SRSKHLLT----ND-MNSQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKCG---GLPV-ALSTVANAL-  371 (1209)
Q Consensus       303 tR~~~v~~----~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPL-ai~~~~~~l-  371 (1209)
                      |+......    .. ......+.+++++.++..++|...+.. .....-..+..+.|++.++   |.|. |+.++-... 
T Consensus       171 t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~  250 (384)
T 2qby_B          171 SNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQ  250 (384)
T ss_dssp             CSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Confidence            88753211    00 011238999999999999999987631 1111222456778888888   8877 444433322 


Q ss_pred             -h-c--C-ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccCcCccccHHHHHHhhhhhc
Q 038494          372 -K-N--K-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFGEGTPIQVASLLRYGKGLF  446 (1209)
Q Consensus       372 -~-~--~-~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp~~~~i~~~~li~~~~g~i  446 (1209)
                       . +  . +.+.+..++++...              ..+..+++.|+++ .+..+..++....+-++. +.....+..+-
T Consensus       251 ~a~~~~~i~~~~v~~~~~~~~~--------------~~~~~~~~~l~~~-~~~~l~al~~~~~~~~~~-~~~~~~~~~~g  314 (384)
T 2qby_B          251 LASGGGIIRKEHVDKAIVDYEQ--------------ERLIEAVKALPFH-YKLALRSLIESEDVMSAH-KMYTDLCNKFK  314 (384)
T ss_dssp             HTTSSSCCCHHHHHHHHHHHHH--------------HHHHHHHHSSCHH-HHHHHHHHHTCCBHHHHH-HHHHHHHHHTT
T ss_pred             HhcCCCccCHHHHHHHHHHHhc--------------chHHHHHHcCCHH-HHHHHHHHHHhcccChHH-HHHHHHHHHcC
Confidence             2 1  2 56677777665431              1233456778876 566555555511100111 11112222110


Q ss_pred             cccccHHHHHHHHHHHHHHHHhcccccC
Q 038494          447 KNVRTLENARNRVDALIDNLKASCLLLD  474 (1209)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~L~~~~ll~~  474 (1209)
                      ...    .....+.++++.|+..+++..
T Consensus       315 ~~~----~~~~~~~~~l~~L~~~gli~~  338 (384)
T 2qby_B          315 QKP----LSYRRFSDIISELDMFGIVKI  338 (384)
T ss_dssp             CCC----CCHHHHHHHHHHHHHTTSEEE
T ss_pred             CCC----CCHHHHHHHHHHHHhCCCEEE
Confidence            000    123456678889999999964

>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=99.24  E-value=2.6e-12  Score=148.67  Aligned_cols=83  Identities=19%  Similarity=0.156  Sum_probs=50.9

Q ss_pred             hcCCCCCcEEEecCccccc-----ccccccCCCCCcEEeccCcccCCc------------ccccCCCCCCEEEccCCCCC
Q 038494          563 FEGTEDLKVLSLSGIHFSS-----LSSSLGHLINLQTLCLDWCQLEDV------------AAIGQLKKLEILSFRYSDIK  625 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~l~~l------------~~i~~L~~L~~L~l~~~~~~  625 (1209)
                      +..+++|++|+|++|.+..     ++..+..+++|++|++++|.+..+            ..+..+++|++|++++|.+.
T Consensus        28 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~  107 (386)
T 2ca6_A           28 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG  107 (386)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC
T ss_pred             HhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCC
Confidence            3556667777777766653     334455667777777776643322            12356677777777776665


Q ss_pred             c-----cchhccCCCCCCEEeccCC
Q 038494          626 Q-----LPLEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       626 ~-----lp~~i~~L~~L~~L~l~~~  645 (1209)
                      .     +|..+.++++|++|++++|
T Consensus       108 ~~~~~~l~~~l~~~~~L~~L~L~~n  132 (386)
T 2ca6_A          108 PTAQEPLIDFLSKHTPLEHLYLHNN  132 (386)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSS
T ss_pred             HHHHHHHHHHHHhCCCCCEEECcCC
Confidence            4     5556666777777777763

>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=99.24  E-value=2.6e-10  Score=132.13  Aligned_cols=319  Identities=12%  Similarity=0.095  Sum_probs=187.0

Q ss_pred             cchhhHHHHHHHHHHHHhC----CCce--EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN----DKLN--IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~----~~~~--vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..++||+.+++.+.+++..    ....  .+.|+|++|+||||+|+.+++...... -..++|++++...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCccCCCHHHHHHHHH
Confidence            5799999999999998874    3334  899999999999999999998876431 12568888888888889999999


Q ss_pred             HHhCCCCCCCC-ChHHHHHHHHHHHh-cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchhh
Q 038494          233 SDLDLNFDLND-SKPHRAKQLCQRLT-KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL  308 (1209)
Q Consensus       233 ~~l~~~~~~~~-~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v  308 (1209)
                      ..++....... ........+...+. .+++.+||+|+++...  ....+...+.....    ....+..+|++|+....
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~----~~~~~~~iI~~~~~~~~  171 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADK----LGAFRIALVIVGHNDAV  171 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHH----HSSCCEEEEEEESSTHH
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCC----CCcCCEEEEEEECCchH
Confidence            98876533222 22444455555554 2568999999998752  22222211111000    00025678888776533


Q ss_pred             hcccC----C--cceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHh---------CCChhHHHHHHHHHh
Q 038494          309 LTNDM----N--SQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKC---------GGLPVALSTVANALK  372 (1209)
Q Consensus       309 ~~~~~----~--~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~---------~glPLai~~~~~~l~  372 (1209)
                      .....    .  ....+.+++++.++..+++...+.. .....-..+..+.|++.+         +|.|..+..+.....
T Consensus       172 ~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~  251 (389)
T 1fnn_A          172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSA  251 (389)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHH
T ss_pred             HHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHH
Confidence            21111    0  1237999999999999999887642 011123356788999999         788755444433211


Q ss_pred             ------cC---ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcccC---cCccccHHHHHH
Q 038494          373 ------NK---KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTLFG---EGTPIQVASLLR  440 (1209)
Q Consensus       373 ------~~---~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~fp---~~~~i~~~~li~  440 (1209)
                            +.   +.+....+.....              ...+.-.+..|+++ .+.++..++.+.   .+..+....+..
T Consensus       252 ~~a~~~~~~~i~~~~v~~~~~~~~--------------~~~~~~~l~~l~~~-~~~~L~~l~~~~~~~~~~~~~~~~i~~  316 (389)
T 1fnn_A          252 YAAQQNGRKHIAPEDVRKSSKEVL--------------FGISEEVLIGLPLH-EKLFLLAIVRSLKISHTPYITFGDAEE  316 (389)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHS--------------CCCCHHHHHHSCHH-HHHHHHHHHHHHHHHCSSCEEHHHHHH
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHHh--------------hhhHHHHHHcCCHH-HHHHHHHHHHHHhhccCCCccHHHHHH
Confidence                  21   2233333333221              11223346778877 677777666543   221455555544


Q ss_pred             hhhhhccccccHHHHHHHHHHHHHHHHhcccccCC------CCCCceE-------ehhHHHHHHHHHhhc
Q 038494          441 YGKGLFKNVRTLENARNRVDALIDNLKASCLLLDG------DAEDEVK-------MHDVIHVVAVSIASE  497 (1209)
Q Consensus       441 ~~~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~------~~~~~~~-------mHdlv~~~~~~~~~~  497 (1209)
                      .+..+........-....+..++++|...+++...      +..+++.       .|++++.+...+..+
T Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~  386 (389)
T 1fnn_A          317 SYKIVCEEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKE  386 (389)
T ss_dssp             HHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHH
Confidence            32221100000000134566789999999999652      1112222       367777666655544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.24  E-value=2.3e-11  Score=138.96  Aligned_cols=171  Identities=23%  Similarity=0.230  Sum_probs=131.7

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhc-CCCCCcEEEecCcccccccc-cccCCCCCcEEeccC
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFE-GTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDW  599 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~-~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~  599 (1209)
                      +.+...++.+..+|... .+.++.|++++|  .+..++...|. ++++|++|+|++|.++.++. .+..+++|++|+|++
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-PSYTALLDLSHN--NLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS   97 (361)
T ss_dssp             TEEECCSSCCSSCCSSC-CTTCSEEECCSS--CCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCccCccC-CCCCCEEECCCC--CCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCC
Confidence            46777788888887654 356889999888  56777777777 89999999999999988764 688999999999999


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhh---cCCCCCcEEECCCCCCc
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVI---SKFSRLEELYMGDSFPQ  673 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l---~~L~~L~~L~l~~~~~~  673 (1209)
                      |.++.+  ..+.++.+|++|++++|.+..+ |..+.++++|++|++++ +.++.++...+   ..+++|+.|++++|.+.
T Consensus        98 N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~  176 (361)
T 2xot_A           98 NHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQ-NQISRFPVELIKDGNKLPKLMLLDLSSNKLK  176 (361)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SCCCSCCGGGTC----CTTCCEEECCSSCCC
T ss_pred             CcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCC-CcCCeeCHHHhcCcccCCcCCEEECCCCCCC
Confidence            998887  4588999999999999998877 56788999999999998 67888887655   56899999999887532


Q ss_pred             cccccCCCccchhhhCCCCC--CCEEEeeccCC
Q 038494          674 WDKVEGGSNASLAELKGLSK--LTTLEIQVQDA  704 (1209)
Q Consensus       674 ~~~~~~~~~~~l~~L~~l~~--L~~L~l~~~~~  704 (1209)
                      .        -....+..++.  ++.|+++.+..
T Consensus       177 ~--------l~~~~~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          177 K--------LPLTDLQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             C--------CCHHHHHHSCHHHHTTEECCSSCE
T ss_pred             c--------cCHHHhhhccHhhcceEEecCCCc
Confidence            1        01223444444  36788887764

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.23  E-value=7e-11  Score=136.93  Aligned_cols=299  Identities=14%  Similarity=0.105  Sum_probs=177.6

Q ss_pred             ccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcc---c-CCEEEEEEcCCCcCHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK---V-FDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~---~-f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      +..|+||+++++.+.+++.    ....+.+.|+|++|+||||+|+.+++......   . -..++|+++....+...++.
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            3579999999999999885    24457899999999999999999998774321   1 13568889888888999999


Q ss_pred             HHHHHhCCCCCCCCC-hHHHHHHHHHHHh-cCCeEEEEEeCCCcccCc----cccCCCCCCCCccccccccCCcEEEEec
Q 038494          230 KLASDLDLNFDLNDS-KPHRAKQLCQRLT-KEKRVLIILDNIWKKLGL----EEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~-~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~~----~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                      .++..++........ .......+...+. .+++.+||+||++.....    +.+...+.....   .....+..+|+||
T Consensus        98 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~---~~~~~~~~~I~~t  174 (387)
T 2v1u_A           98 AIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQE---LGDRVWVSLVGIT  174 (387)
T ss_dssp             HHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGC---C-----CEEEEEC
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhh---cCCCceEEEEEEE
Confidence            999999765433222 2444566666664 356899999999876321    111110000000   0001456788888


Q ss_pred             cchhhhcc----cCC--cceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHhC---CChh-HHHHHHHHHh
Q 038494          304 RSKHLLTN----DMN--SQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKCG---GLPV-ALSTVANALK  372 (1209)
Q Consensus       304 R~~~v~~~----~~~--~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPL-ai~~~~~~l~  372 (1209)
                      +.......    ...  ....+.+++++.++..+++...+.. .....-..+..+.|++.++   |.|- ++.++.....
T Consensus       175 ~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~  254 (387)
T 2v1u_A          175 NSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGE  254 (387)
T ss_dssp             SCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             CCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            76532110    011  1257899999999999999987531 0111222356778888888   9994 3333322221


Q ss_pred             -----c--C-ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhc-ccCcCccccHHHHHHhhh
Q 038494          373 -----N--K-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCT-LFGEGTPIQVASLLRYGK  443 (1209)
Q Consensus       373 -----~--~-~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s-~fp~~~~i~~~~li~~~~  443 (1209)
                           +  . +.+.+..++......              .+.-++..++++ .+..+..++ ++..+..+....+.+...
T Consensus       255 ~a~~~~~~~i~~~~v~~a~~~~~~~--------------~~~~~~~~l~~~-~~~~l~a~~~~~~~~~~~~~~~~~~~~~  319 (387)
T 2v1u_A          255 IAERRREERVRREHVYSARAEIERD--------------RVSEVVRTLPLH-AKLVLLSIMMLEDGGRPASTGEIYERYK  319 (387)
T ss_dssp             HHHHTTCSCBCHHHHHHHHHHHHHH--------------HHHHHHHSSCHH-HHHHHHHHHHHSSSSCCEEHHHHHHHHH
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHhhc--------------hHHHHHHcCCHH-HHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence                 1  1 556666666653211              123356778877 555555444 443323555554444311


Q ss_pred             hhccccccHHHHHHHHHHHHHHHHhcccccC
Q 038494          444 GLFKNVRTLENARNRVDALIDNLKASCLLLD  474 (1209)
Q Consensus       444 g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  474 (1209)
                      .+.........+...+.++++.|...+++..
T Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~  350 (387)
T 2v1u_A          320 ELTSTLGLEHVTLRRVSGIISELDMLGIVKS  350 (387)
T ss_dssp             HHHHHTTCCCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhCCCeEE
Confidence            1100000000123456678888999999875

>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=99.23  E-value=3.9e-11  Score=139.07  Aligned_cols=295  Identities=15%  Similarity=0.121  Sum_probs=170.9

Q ss_pred             ccchhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhccc-CCEEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV-FDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~-f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      +..|+||+++++.+.+++.    ......+.|+|++|+||||||+.+++....... -..++|+++....+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999887    344578999999999999999999988754311 23567888877667788888888


Q ss_pred             HHhCCCCCCCC-ChHHHHHHHHHHHhc-CCeEEEEEeCCCcccC------ccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          233 SDLDLNFDLND-SKPHRAKQLCQRLTK-EKRVLIILDNIWKKLG------LEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       233 ~~l~~~~~~~~-~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~------~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      ..++....... ........+.+.+.. +++.+||+|+++....      +..+.......       ...+..+|+||+
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~-------~~~~~~~I~~~~  171 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV-------NKSKISFIGITN  171 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSC-------CC--EEEEEEES
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhc-------CCCeEEEEEEEC
Confidence            87765433222 224445566666653 3589999999987531      11111111000       013556788887


Q ss_pred             chhhhcccC------CcceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHhC---CChhHHHHHHH-HHh-
Q 038494          305 SKHLLTNDM------NSQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKCG---GLPVALSTVAN-ALK-  372 (1209)
Q Consensus       305 ~~~v~~~~~------~~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~~---glPLai~~~~~-~l~-  372 (1209)
                      .........      -....+.+++++.++..+++...+.. .....-..+..+.+++.++   |.|..+..+.. ... 
T Consensus       172 ~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~  251 (386)
T 2qby_A          172 DVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEI  251 (386)
T ss_dssp             CGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            654321110      11258999999999999999986531 1112223566778888887   99884433322 221 


Q ss_pred             ----c--C-ChhHHHHHHHHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHhcc-cC-cCccccHHHHHHhhh
Q 038494          373 ----N--K-KLPVWKDALTQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLCTL-FG-EGTPIQVASLLRYGK  443 (1209)
Q Consensus       373 ----~--~-~~~~w~~~~~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~s~-fp-~~~~i~~~~li~~~~  443 (1209)
                          +  . +.+.+..++.....              ..+.-.+..+|+. .+..+..++. +. ....+....+.+...
T Consensus       252 a~~~~~~~i~~~~v~~a~~~~~~--------------~~~~~~~~~l~~~-~~~il~ai~~~~~~g~~~~~~~~l~~~~~  316 (386)
T 2qby_A          252 AERMKDTKVKEEYVYMAKEEIER--------------DRVRDIILTLPFH-SKLVLMAVVSISSEENVVSTTGAVYETYL  316 (386)
T ss_dssp             HHHTTCSSCCHHHHHHHHHHHHH--------------HHHHHHHHTSCHH-HHHHHHHHHHHC-----CEEHHHHHHHHH
T ss_pred             HHhcCCCccCHHHHHHHHHHHhh--------------chHHHHHHcCCHH-HHHHHHHHHHHHhcCCCceeHHHHHHHHH
Confidence                1  1 45556655554321              1223345677776 5555555553 21 112344443322211


Q ss_pred             hhccccccHHHHHHHHHHHHHHHHhcccccC
Q 038494          444 GLFKNVRTLENARNRVDALIDNLKASCLLLD  474 (1209)
Q Consensus       444 g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  474 (1209)
                      .+.............+..+++.|...+++..
T Consensus       317 ~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~  347 (386)
T 2qby_A          317 NICKKLGVEAVTQRRVSDIINELDMVGILTA  347 (386)
T ss_dssp             HHHHHHTCCCCCHHHHHHHHHHHHHHTSEEE
T ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhCCCEEE
Confidence            1000000000012345567888999999864

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.22  E-value=2.7e-11  Score=135.30  Aligned_cols=193  Identities=18%  Similarity=0.082  Sum_probs=140.4

Q ss_pred             cCCeEEEEccCCCCccC-CCc---CCCCCccEEEeccCCCccc--ccChhhhcCCCCCcEEEecCccccccc-ccccCCC
Q 038494          518 QKGAIAISIPYGDIQEL-PER---LECPQLKLLLLLANGDSYL--EISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLI  590 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~-~~~---~~~~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~  590 (1209)
                      ...++++.+.++.+... |..   ..+++|++|++++|.....  .++...+..+++|++|++++|.+..+| ..++.++
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            35689999999887643 333   4689999999998852211  122233457899999999999998765 5788999


Q ss_pred             CCcEEeccCcccCC---c---ccccCCCCCCEEEccCCCCCccchh----ccCCCCCCEEeccCCCCCcccCchhhcCC-
Q 038494          591 NLQTLCLDWCQLED---V---AAIGQLKKLEILSFRYSDIKQLPLE----IGQLAQLQLLDLSNCSSLVVIAPNVISKF-  659 (1209)
Q Consensus       591 ~L~~L~l~~~~l~~---l---~~i~~L~~L~~L~l~~~~~~~lp~~----i~~L~~L~~L~l~~~~~l~~~~~~~l~~L-  659 (1209)
                      +|++|++++|.+..   +   ..++.+++|++|++++|.++.+|..    ++.+++|++|++++ +.+....+..+..+ 
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~-N~l~~~~p~~~~~~~  248 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSH-NSLRATVNPSAPRCM  248 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTT-SCCCCCCCSCCSSCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCC-CCCCccchhhHHhcc
Confidence            99999999998654   2   2246889999999999999877653    57889999999999 56666633336665 


Q ss_pred             --CCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEE
Q 038494          660 --SRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRIC  722 (1209)
Q Consensus       660 --~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  722 (1209)
                        ++|++|++++|...      .   ....+  .++|+.|+++.+.+..++....+++|+.|.+.
T Consensus       249 ~~~~L~~L~Ls~N~l~------~---lp~~~--~~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~  302 (310)
T 4glp_A          249 WSSALNSLNLSFAGLE------Q---VPKGL--PAKLRVLDLSSNRLNRAPQPDELPEVDNLTLD  302 (310)
T ss_dssp             CCTTCCCEECCSSCCC------S---CCSCC--CSCCSCEECCSCCCCSCCCTTSCCCCSCEECS
T ss_pred             CcCcCCEEECCCCCCC------c---hhhhh--cCCCCEEECCCCcCCCCchhhhCCCccEEECc
Confidence              69999999887542      1   11122  26899999999988877654456677777653

>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=99.22  E-value=9e-11  Score=123.34  Aligned_cols=147  Identities=18%  Similarity=0.210  Sum_probs=117.7

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEcc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR  620 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~  620 (1209)
                      +.+++.++  ....+|..+   .+.|+.|++++|.++.+|. .+..+++|++|++++|.++.+  ..+.++++|++|+++
T Consensus        14 ~~v~c~~~--~l~~iP~~l---~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls   88 (220)
T 2v9t_B           14 NIVDCRGK--GLTEIPTNL---PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLY   88 (220)
T ss_dssp             TEEECTTS--CCSSCCSSC---CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECC
T ss_pred             CEEEcCCC--CcCcCCCcc---CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECC
Confidence            45666665  355666544   2689999999999998876 789999999999999999887  679999999999999


Q ss_pred             CCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEe
Q 038494          621 YSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEI  699 (1209)
Q Consensus       621 ~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l  699 (1209)
                      +|.++.+|.. +.++++|++|++++ +.++.+++..+..+++|++|++++|.+...        ....+..+++|+.|++
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B           89 GNKITELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLLSLYDNKLQTI--------AKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSCC--------CTTTTTTCTTCCEEEC
T ss_pred             CCcCCccCHhHccCCCCCCEEECCC-CCCCEeCHHHcCCCCCCCEEECCCCcCCEE--------CHHHHhCCCCCCEEEe
Confidence            9999999876 58899999999999 678888777789999999999988753211        1124667888899988


Q ss_pred             eccCC
Q 038494          700 QVQDA  704 (1209)
Q Consensus       700 ~~~~~  704 (1209)
                      +.+..
T Consensus       160 ~~N~~  164 (220)
T 2v9t_B          160 AQNPF  164 (220)
T ss_dssp             CSSCE
T ss_pred             CCCCc
Confidence            77653

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.21  E-value=4.9e-11  Score=136.20  Aligned_cols=156  Identities=21%  Similarity=0.282  Sum_probs=110.3

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc-cc-CCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LG-HLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~-i~-~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      +++++.++  ....+|..+   ...+++|+|++|.++.++.. +. .+.+|++|++++|.++.+  ..+.++++|++|++
T Consensus        21 ~~l~c~~~--~l~~iP~~~---~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   95 (361)
T 2xot_A           21 NILSCSKQ--QLPNVPQSL---PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TEEECCSS--CCSSCCSSC---CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEEEeCCC--CcCccCccC---CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEEC
Confidence            56666665  355566543   34578888888888877653 54 788888888888888877  45888888888888


Q ss_pred             cCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          620 RYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       620 ~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      ++|.++.+|. .+.++++|++|++++ +.+..+++..+..+++|++|++++|.+..     -....+..+..+++|+.|+
T Consensus        96 s~N~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~L~~N~l~~-----l~~~~~~~~~~l~~L~~L~  169 (361)
T 2xot_A           96 SSNHLHTLDEFLFSDLQALEVLLLYN-NHIVVVDRNAFEDMAQLQKLYLSQNQISR-----FPVELIKDGNKLPKLMLLD  169 (361)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCCS-----CCGGGTC----CTTCCEEE
T ss_pred             CCCcCCcCCHHHhCCCcCCCEEECCC-CcccEECHHHhCCcccCCEEECCCCcCCe-----eCHHHhcCcccCCcCCEEE
Confidence            8888887765 477888888888888 66777766668888888888888764321     1111122235678888888


Q ss_pred             eeccCCCCCCcc
Q 038494          699 IQVQDAQMLPQD  710 (1209)
Q Consensus       699 l~~~~~~~~~~~  710 (1209)
                      ++.+.+..++..
T Consensus       170 L~~N~l~~l~~~  181 (361)
T 2xot_A          170 LSSNKLKKLPLT  181 (361)
T ss_dssp             CCSSCCCCCCHH
T ss_pred             CCCCCCCccCHH
Confidence            888888777643

>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=99.21  E-value=4.4e-11  Score=120.06  Aligned_cols=137  Identities=23%  Similarity=0.222  Sum_probs=75.6

Q ss_pred             CCCCcEEEecCcccc--cccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCc-cchhccCCCCCCEEec
Q 038494          566 TEDLKVLSLSGIHFS--SLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQ-LPLEIGQLAQLQLLDL  642 (1209)
Q Consensus       566 l~~Lr~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~-lp~~i~~L~~L~~L~l  642 (1209)
                      .++|++|++++|.++  .+|..+..+++|++|++++|.++.+..++.+++|++|++++|.+.. +|..+.++++|++|++
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  102 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNL  102 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEEC
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEec
Confidence            355666666666665  5665556666666666666665555555666666666666666654 4555555666666666


Q ss_pred             cCCCCCcccCc-hhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCC
Q 038494          643 SNCSSLVVIAP-NVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLP  708 (1209)
Q Consensus       643 ~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~  708 (1209)
                      ++ +.++.++. ..+..+++|++|++++|...     .........+..+++|+.|+++.+....++
T Consensus       103 s~-N~l~~~~~~~~l~~l~~L~~L~l~~N~l~-----~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  163 (168)
T 2ell_A          103 SG-NKLKDISTLEPLKKLECLKSLDLFNCEVT-----NLNDYRESVFKLLPQLTYLDGYDREDQEAP  163 (168)
T ss_dssp             BS-SSCCSSGGGGGGSSCSCCCEEECCSSGGG-----TSTTHHHHHHTTCSSCCEETTEETTSCBCC
T ss_pred             cC-CccCcchhHHHHhcCCCCCEEEeeCCcCc-----chHHHHHHHHHhCccCcEecCCCCChhhcc
Confidence            66 34444432 33556666666666554321     000000124555666666666665554443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.21  E-value=3e-11  Score=134.93  Aligned_cols=136  Identities=15%  Similarity=0.144  Sum_probs=85.6

Q ss_pred             CCCCcEEEecCcccc-cccccc--cCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCCccc-hhccCCC
Q 038494          566 TEDLKVLSLSGIHFS-SLSSSL--GHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIKQLP-LEIGQLA  635 (1209)
Q Consensus       566 l~~Lr~L~L~~~~i~-~lp~~i--~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~  635 (1209)
                      +++|++|++++|.+. ..|..+  ..+.+|++|++++|.+...      ..+..+++|++|++++|.+..+| ..+++++
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            456888888888776 445555  7778888888888876652      23456778888888888777654 4577778


Q ss_pred             CCCEEeccCCCCCcc--cC-chhhcCCCCCcEEECCCCCCccccccCCCccchhh-hCCCCCCCEEEeeccCCCCC
Q 038494          636 QLQLLDLSNCSSLVV--IA-PNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAE-LKGLSKLTTLEIQVQDAQML  707 (1209)
Q Consensus       636 ~L~~L~l~~~~~l~~--~~-~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~-L~~l~~L~~L~l~~~~~~~~  707 (1209)
                      +|++|++++|.....  ++ ...++++++|++|++++|...      ........ +..+++|+.|+++.+.+...
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~------~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~  239 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGME------TPTGVCAALAAAGVQPHSLDLSHNSLRAT  239 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCC------CHHHHHHHHHHHTCCCSSEECTTSCCCCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCC------chHHHHHHHHhcCCCCCEEECCCCCCCcc
Confidence            888888877432221  21 111356777888887776421      00111111 35667788888877776655

>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=99.19  E-value=1.6e-10  Score=121.36  Aligned_cols=147  Identities=14%  Similarity=0.163  Sum_probs=118.4

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc--cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS--SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~--~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      ++++++++  ....+|..+   ...+++|++++|.++.++.  .+..+++|++|++++|.++.+  ..+.++++|++|++
T Consensus        14 ~~l~~s~n--~l~~iP~~~---~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~L   88 (220)
T 2v70_A           14 TTVDCSNQ--KLNKIPEHI---PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILL   88 (220)
T ss_dssp             TEEECCSS--CCSSCCSCC---CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEeEeCCC--CcccCccCC---CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEEC
Confidence            57788776  355676644   3467899999999998743  489999999999999999888  47999999999999


Q ss_pred             cCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          620 RYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       620 ~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      ++|.++.+|.. +.++++|++|++++ +.++.+++..+..+++|++|++++|.+..        .....+..+++|+.|+
T Consensus        89 s~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~--------~~~~~~~~l~~L~~L~  159 (220)
T 2v70_A           89 TSNRLENVQHKMFKGLESLKTLMLRS-NRITCVGNDSFIGLSSVRLLSLYDNQITT--------VAPGAFDTLHSLSTLN  159 (220)
T ss_dssp             CSSCCCCCCGGGGTTCSSCCEEECTT-SCCCCBCTTSSTTCTTCSEEECTTSCCCC--------BCTTTTTTCTTCCEEE
T ss_pred             CCCccCccCHhHhcCCcCCCEEECCC-CcCCeECHhHcCCCccCCEEECCCCcCCE--------ECHHHhcCCCCCCEEE
Confidence            99999988765 88999999999999 67888877778999999999998874311        1124567788999999


Q ss_pred             eeccCC
Q 038494          699 IQVQDA  704 (1209)
Q Consensus       699 l~~~~~  704 (1209)
                      ++.+..
T Consensus       160 L~~N~l  165 (220)
T 2v70_A          160 LLANPF  165 (220)
T ss_dssp             CCSCCE
T ss_pred             ecCcCC
Confidence            887653

>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=99.17  E-value=2.3e-10  Score=121.15  Aligned_cols=148  Identities=18%  Similarity=0.210  Sum_probs=119.4

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEE
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  618 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~  618 (1209)
                      ....+++.++  ....+|..+   .++|++|+|++|.++.+ |..+..+++|++|++++|.+..+  ..+..+++|++|+
T Consensus        20 s~~~v~c~~~--~l~~ip~~~---~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           20 SGTTVDCRSK--RHASVPAGI---PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             ETTEEECTTS--CCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             eCCEeEccCC--CcCccCCCC---CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEE
Confidence            4566777665  466677644   38899999999999977 66789999999999999999888  4578999999999


Q ss_pred             ccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEE
Q 038494          619 FRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL  697 (1209)
Q Consensus       619 l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L  697 (1209)
                      +++|.++.+|.. +..+++|++|++++ +.++.+|.. +..+++|++|++++|.+..     -   ....+..+++|+.|
T Consensus        95 Ls~N~l~~l~~~~~~~l~~L~~L~Ls~-N~l~~lp~~-~~~l~~L~~L~L~~N~l~~-----~---~~~~~~~l~~L~~L  164 (229)
T 3e6j_A           95 LGTNQLTVLPSAVFDRLVHLKELFMCC-NKLTELPRG-IERLTHLTHLALDQNQLKS-----I---PHGAFDRLSSLTHA  164 (229)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCSCCTT-GGGCTTCSEEECCSSCCCC-----C---CTTTTTTCTTCCEE
T ss_pred             CCCCcCCccChhHhCcchhhCeEeccC-CcccccCcc-cccCCCCCEEECCCCcCCc-----c---CHHHHhCCCCCCEE
Confidence            999999988765 68899999999999 678888765 7899999999998874321     0   11346778899999


Q ss_pred             EeeccCC
Q 038494          698 EIQVQDA  704 (1209)
Q Consensus       698 ~l~~~~~  704 (1209)
                      +++.+..
T Consensus       165 ~l~~N~~  171 (229)
T 3e6j_A          165 YLFGNPW  171 (229)
T ss_dssp             ECTTSCB
T ss_pred             EeeCCCc
Confidence            9987754

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.16  E-value=5.9e-11  Score=116.39  Aligned_cols=103  Identities=24%  Similarity=0.285  Sum_probs=56.3

Q ss_pred             hcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCC-c-ccccCCCCCCEEEccCCCCCccc--hhccCCCCCC
Q 038494          563 FEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED-V-AAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQ  638 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~-l-~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~  638 (1209)
                      +..+++|++|++++|.++.+ ..++.+++|++|++++|.+.. + ..++.+++|++|++++|.++.+|  ..++.+++|+
T Consensus        38 ~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~  116 (149)
T 2je0_A           38 TDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLK  116 (149)
T ss_dssp             CTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCC
T ss_pred             HhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCC
Confidence            34555566666666555555 445555666666666665555 3 33444556666666665555543  4555566666


Q ss_pred             EEeccCCCCCcccCc---hhhcCCCCCcEEEC
Q 038494          639 LLDLSNCSSLVVIAP---NVISKFSRLEELYM  667 (1209)
Q Consensus       639 ~L~l~~~~~l~~~~~---~~l~~L~~L~~L~l  667 (1209)
                      +|++++ +.++..++   ..++.+++|+.|++
T Consensus       117 ~L~l~~-N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A          117 SLDLFN-CEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             EEECTT-CGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             EEeCcC-CcccchHHHHHHHHHHCCCcccccC
Confidence            666655 34444443   33555555555554

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.16  E-value=3.2e-10  Score=135.51  Aligned_cols=177  Identities=18%  Similarity=0.223  Sum_probs=136.0

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      .+++.+.+.++.+..+|... +++|++|++++|.  +..+|    ..+++|++|++++|.++.+|. ++.  +|++|+++
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~--l~~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDNL-PPQITVLEITQNA--LISLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSCC-CTTCSEEECCSSC--CSCCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECC
T ss_pred             CCccEEEeCCCCCCccCHhH-cCCCCEEECcCCC--Ccccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEECC
Confidence            47889999999998888755 4899999999984  55676    357899999999999999998 766  99999999


Q ss_pred             CcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       599 ~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +|.++.++.  .+++|++|++++|.++.+|.   .+++|++|++++ +.++.+|.  +.  ++|+.|++++|.+..    
T Consensus       129 ~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~-N~L~~lp~--l~--~~L~~L~Ls~N~L~~----  194 (571)
T 3cvr_A          129 NNQLTMLPE--LPALLEYINADNNQLTMLPE---LPTSLEVLSVRN-NQLTFLPE--LP--ESLEALDVSTNLLES----  194 (571)
T ss_dssp             SSCCSCCCC--CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCS-SCCSCCCC--CC--TTCCEEECCSSCCSS----
T ss_pred             CCcCCCCCC--cCccccEEeCCCCccCcCCC---cCCCcCEEECCC-CCCCCcch--hh--CCCCEEECcCCCCCc----
Confidence            999988855  78999999999999999887   678999999999 56777765  55  899999999875421    


Q ss_pred             CCCccchhhh-CCCCCCCEEEeeccCCCCCCccc-ccCCCCeEEE
Q 038494          679 GGSNASLAEL-KGLSKLTTLEIQVQDAQMLPQDL-VFVELPRYRI  721 (1209)
Q Consensus       679 ~~~~~~l~~L-~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l  721 (1209)
                        .+.....| .....|+.|+++.|.+..+|..+ .+.+|+.|.+
T Consensus       195 --lp~~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L  237 (571)
T 3cvr_A          195 --LPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIIL  237 (571)
T ss_dssp             --CCCCC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEEC
T ss_pred             --hhhHHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEe
Confidence              11111111 11233499999999998888753 4566666554

>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=99.14  E-value=3.7e-11  Score=138.95  Aligned_cols=38  Identities=18%  Similarity=0.010  Sum_probs=22.4

Q ss_pred             CccCCcEEEEecccCce----eeeccCCccccccCCcccEEecccc
Q 038494          787 GFPRLKHLWVERCSEIL----HIVGSVGRVHRKVFPLLESLSLYKL  828 (1209)
Q Consensus       787 ~l~~L~~L~l~~~~~l~----~~~~~~~~~~~~~~~~L~~L~l~~~  828 (1209)
                      .+++|++|++++|.-..    .++..    ....+++|+.|+++++
T Consensus       272 ~~~~L~~L~L~~n~i~~~g~~~l~~~----l~~~l~~L~~L~l~~N  313 (386)
T 2ca6_A          272 ENIGLQTLRLQYNEIELDAVRTLKTV----IDEKMPDLLFLELNGN  313 (386)
T ss_dssp             SSCCCCEEECCSSCCBHHHHHHHHHH----HHHHCTTCCEEECTTS
T ss_pred             cCCCeEEEECcCCcCCHHHHHHHHHH----HHhcCCCceEEEccCC
Confidence            46778888888775221    01100    0133688888888874

>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=99.13  E-value=1.1e-10  Score=117.03  Aligned_cols=127  Identities=23%  Similarity=0.218  Sum_probs=71.2

Q ss_pred             CCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCC-c-ccccCCCCCCEEE
Q 038494          541 PQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED-V-AAIGQLKKLEILS  618 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~-l-~~i~~L~~L~~L~  618 (1209)
                      ++|++|++.+|......++.. +..+++|++|++++|.++.+ ..++.+++|++|++++|.+.. + ..+.++++|++|+
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             ccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            445555555542111133332 35556666666666666655 456666666666666666655 3 3344466666666


Q ss_pred             ccCCCCCccc--hhccCCCCCCEEeccCCCCCcccCc---hhhcCCCCCcEEECCCC
Q 038494          619 FRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIAP---NVISKFSRLEELYMGDS  670 (1209)
Q Consensus       619 l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~~---~~l~~L~~L~~L~l~~~  670 (1209)
                      +++|.++.+|  ..+.++++|++|++++ +.+...++   ..+..+++|++|++.++
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~-N~l~~~~~~~~~~~~~l~~L~~L~l~~n  157 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFN-CEVTNLNDYRESVFKLLPQLTYLDGYDR  157 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCS-SGGGTSTTHHHHHHTTCSSCCEETTEET
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeC-CcCcchHHHHHHHHHhCccCcEecCCCC
Confidence            6666666554  4566666666666666 34555544   34566666666666554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.13  E-value=2.8e-10  Score=116.62  Aligned_cols=120  Identities=18%  Similarity=0.332  Sum_probs=86.8

Q ss_pred             EEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCC
Q 038494          545 LLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYS  622 (1209)
Q Consensus       545 ~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~  622 (1209)
                      ++++.++  .+..+|..+   .+.|++|++++|.++.+|..+..+.+|++|++++|.++.+  ..|.++++|++|++++|
T Consensus        14 ~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           14 VVRCSNK--GLKVLPKGI---PRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             EEECTTS--CCSSCCSCC---CTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEEcCCC--CCCcCCCCC---CCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            4444444  234444433   2467888888888888887788888888888888887777  45778888888888888


Q ss_pred             CCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          623 DIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       623 ~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .++.+|+ .+.++++|++|++++ +.++.+++..+..+++|+.|++++|
T Consensus        89 ~l~~i~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           89 RLRCIPPRTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CCCBCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             ccCEeCHHHhCCCCCCCEEECCC-CCCCeeChhhhhcCccccEEEeCCC
Confidence            8877754 477788888888887 6677777666777788888877765

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.12  E-value=1e-10  Score=145.50  Aligned_cols=153  Identities=16%  Similarity=0.175  Sum_probs=98.0

Q ss_pred             cCCeEEEEccCCCCccCCCcC-CCCCccEEEeccCC--CcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcE
Q 038494          518 QKGAIAISIPYGDIQELPERL-ECPQLKLLLLLANG--DSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQT  594 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~--~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~  594 (1209)
                      ...++++.+..+.+...+... ...+|+.+.+....  .....++...|..++.|++|+|++|.+..+|..+..+.+|++
T Consensus       172 ~~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~  251 (727)
T 4b8c_D          172 TPLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTR  251 (727)
T ss_dssp             --------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCSC
T ss_pred             CCccceEEeeCCCCCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCE
Confidence            356888888877776655432 34444444443311  011225566778999999999999999999998999999999


Q ss_pred             EeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCC
Q 038494          595 LCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFP  672 (1209)
Q Consensus       595 L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  672 (1209)
                      |+|++|.++.+ ..+++|++|++|+|++|.++.+|..+++|++|++|++++ +.++.+|.. +++|++|++|++++|..
T Consensus       252 L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~-N~l~~lp~~-~~~l~~L~~L~L~~N~l  328 (727)
T 4b8c_D          252 LYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFD-NMVTTLPWE-FGNLCNLQFLGVEGNPL  328 (727)
T ss_dssp             CBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCS-SCCCCCCSS-TTSCTTCCCEECTTSCC
T ss_pred             EEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCC-CCCCccChh-hhcCCCccEEeCCCCcc
Confidence            99999999988 789999999999999999999999999999999999999 577888766 99999999999998754

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

Probab=99.11  E-value=5e-10  Score=116.81  Aligned_cols=143  Identities=22%  Similarity=0.264  Sum_probs=121.5

Q ss_pred             hcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc-ccCCCCCc
Q 038494          517 IQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LGHLINLQ  593 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~-i~~l~~L~  593 (1209)
                      .+.+++++.+.++.+..++..  ..+++|++|++.+|  .+..++...|.++++|++|++++|.++.+|.. +..+++|+
T Consensus        26 ~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n--~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  103 (208)
T 2o6s_A           26 IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGN--KLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLK  103 (208)
T ss_dssp             CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS--CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCC--ccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCC
Confidence            456899999999999888764  37999999999998  46678888889999999999999999988764 78999999


Q ss_pred             EEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       594 ~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      +|++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|+++++. +       .+.+++|+.|.++.
T Consensus       104 ~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~-~-------~~~~~~l~~L~~~~  174 (208)
T 2o6s_A          104 ELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP-W-------DCTCPGIRYLSEWI  174 (208)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCC-B-------CCCTTTTHHHHHHH
T ss_pred             EEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCC-e-------ecCCCCHHHHHHHH
Confidence            999999999888  4479999999999999999988775 7889999999999842 2       23456777776544

>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=99.11  E-value=6.9e-10  Score=117.48  Aligned_cols=191  Identities=10%  Similarity=0.104  Sum_probs=121.4

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      .....++||++.++.+.+++.....+.+.|+|++|+|||++|+.+++.......-...+.+..+.......+...+....
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFA   93 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHH
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHh
Confidence            33567899999999999999876665699999999999999999998864332122345555555444433322222211


Q ss_pred             CCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchhhh-ccc
Q 038494          236 DLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-TND  312 (1209)
Q Consensus       236 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-~~~  312 (1209)
                      ....                ...+++.+||+||++...  ..+.+...+....        .+.++|+||+..... ...
T Consensus        94 ~~~~----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~--------~~~~~i~~~~~~~~~~~~l  149 (226)
T 2chg_A           94 RTAP----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYS--------KSCRFILSCNYVSRIIEPI  149 (226)
T ss_dssp             TSCC----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCHHH
T ss_pred             cccC----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcC--------CCCeEEEEeCChhhcCHHH
Confidence            1100                012567999999998762  2222222111111        567888888765322 111


Q ss_pred             CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHH
Q 038494          313 MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL  371 (1209)
Q Consensus       313 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l  371 (1209)
                      ......+.+.+++.++..+++.+.+..... .-..+..+.|++.++|.|..+..+...+
T Consensus       150 ~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~l~~~l~~~  207 (226)
T 2chg_A          150 QSRCAVFRFKPVPKEAMKKRLLEICEKEGV-KITEDGLEALIYISGGDFRKAINALQGA  207 (226)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhCceeecCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            233458999999999999999987642111 1224677889999999999765554433

>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=1.7e-10  Score=112.99  Aligned_cols=124  Identities=22%  Similarity=0.216  Sum_probs=108.2

Q ss_pred             hcCCeEEEEccCCCCc--cCCCc-CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccc-ccccccCCCCC
Q 038494          517 IQKGAIAISIPYGDIQ--ELPER-LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSS-LSSSLGHLINL  592 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~--~~~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~-lp~~i~~l~~L  592 (1209)
                      .+.+++++.+.++.+.  .+|.. ..+++|++|++.+|.  +..+  ..+.++++|++|++++|.++. +|..++.+++|
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~--l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L   90 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG--LTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNL   90 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC--CCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTC
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC--CCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCC
Confidence            3467899999999988  77766 479999999999984  4444  557899999999999999997 88888889999


Q ss_pred             cEEeccCcccCCc---ccccCCCCCCEEEccCCCCCccch----hccCCCCCCEEeccC
Q 038494          593 QTLCLDWCQLEDV---AAIGQLKKLEILSFRYSDIKQLPL----EIGQLAQLQLLDLSN  644 (1209)
Q Consensus       593 ~~L~l~~~~l~~l---~~i~~L~~L~~L~l~~~~~~~lp~----~i~~L~~L~~L~l~~  644 (1209)
                      ++|++++|.++.+   ..++.+++|++|++++|.++.+|.    .+..+++|++|++++
T Consensus        91 ~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A           91 THLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             CEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             CEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCCC
Confidence            9999999999885   678999999999999999998876    689999999998863

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.09  E-value=6.4e-10  Score=132.90  Aligned_cols=158  Identities=18%  Similarity=0.169  Sum_probs=129.7

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ..+++.+.+++|.+..+|  ..+++|++|++++|.  +..+|.  +.+  +|++|++++|.++.+|.   .+++|++|++
T Consensus        79 ~~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~--l~~ip~--l~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L~L  147 (571)
T 3cvr_A           79 PPQITVLEITQNALISLP--ELPASLEYLDACDNR--LSTLPE--LPA--SLKHLDVDNNQLTMLPE---LPALLEYINA  147 (571)
T ss_dssp             CTTCSEEECCSSCCSCCC--CCCTTCCEEECCSSC--CSCCCC--CCT--TCCEEECCSSCCSCCCC---CCTTCCEEEC
T ss_pred             cCCCCEEECcCCCCcccc--cccCCCCEEEccCCC--CCCcch--hhc--CCCEEECCCCcCCCCCC---cCccccEEeC
Confidence            467999999999999998  458999999999984  555776  444  99999999999999988   7899999999


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCC-------cEEECCCC
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRL-------EELYMGDS  670 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L-------~~L~l~~~  670 (1209)
                      ++|.++.++.  .+++|++|++++|.++.+|. +.  ++|++|++++ +.++.+|.  +..  +|       +.|++++|
T Consensus       148 s~N~l~~lp~--~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~-N~L~~lp~--~~~--~L~~~~~~L~~L~Ls~N  217 (571)
T 3cvr_A          148 DNNQLTMLPE--LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVST-NLLESLPA--VPV--RNHHSEETEIFFRCREN  217 (571)
T ss_dssp             CSSCCSCCCC--CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCS-SCCSSCCC--CC----------CCEEEECCSS
T ss_pred             CCCccCcCCC--cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcC-CCCCchhh--HHH--hhhcccccceEEecCCC
Confidence            9999988854  67899999999999999988 66  8999999999 57877776  443  66       99999887


Q ss_pred             CCccccccCCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          671 FPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       671 ~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                      .+.         .....+..+++|+.|+++.|.+.
T Consensus       218 ~l~---------~lp~~l~~l~~L~~L~L~~N~l~  243 (571)
T 3cvr_A          218 RIT---------HIPENILSLDPTCTIILEDNPLS  243 (571)
T ss_dssp             CCC---------CCCGGGGGSCTTEEEECCSSSCC
T ss_pred             cce---------ecCHHHhcCCCCCEEEeeCCcCC
Confidence            532         22334566899999999998764

>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=99.09  E-value=3.8e-10  Score=115.75  Aligned_cols=102  Identities=23%  Similarity=0.326  Sum_probs=53.9

Q ss_pred             CCcEEEecCccccccccc--ccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEec
Q 038494          568 DLKVLSLSGIHFSSLSSS--LGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDL  642 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~--i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l  642 (1209)
                      .|++|++++|.++.++..  ++.+++|++|++++|.++.+  ..+.++++|++|++++|.++.++.. +.++++|++|++
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  109 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL  109 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEEC
Confidence            455555555555554432  55555555555555555554  3455555555555555555544332 455555555555


Q ss_pred             cCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          643 SNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       643 ~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++ +.++.+++..+..+++|++|++++|
T Consensus       110 ~~-N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A          110 YD-NQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CS-SCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             CC-CcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            55 3444444444555555555555544

>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=99.09  E-value=7.2e-10  Score=119.33  Aligned_cols=184  Identities=11%  Similarity=0.166  Sum_probs=118.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-------------------EEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-------------------KVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-------------------~~~wv  216 (1209)
                      ....|+||+..++.+.+++.... .+.+.|+|++|+||||+|+.+++.......+.                   ..+.+
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEI  100 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEE
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEe
Confidence            35679999999999999987543 35789999999999999999998775422110                   11111


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~  290 (1209)
                      ...... .                     ......+.+.+.    .+++.+||+||++...  .++.+...+....    
T Consensus       101 ~~~~~~-~---------------------~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~----  154 (250)
T 1njg_A          101 DAASRT-K---------------------VEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP----  154 (250)
T ss_dssp             ETTCGG-G---------------------HHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCC----
T ss_pred             cCcccc-c---------------------HHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCC----
Confidence            111110 1                     122222322221    2467999999998742  3333322222112    


Q ss_pred             ccccCCcEEEEeccchhhh-cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          291 KQDLRRRTIILTSRSKHLL-TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~v~-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                          .+..+|+||+..... .........+++++++.+|..+++...+..... .-..+..+.|++.++|.|..+..+..
T Consensus       155 ----~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~G~~~~~~~~~~  229 (250)
T 1njg_A          155 ----EHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-AHEPRALQLLARAAEGSLRDALSLTD  229 (250)
T ss_dssp             ----TTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC-CBCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----CceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence                567788888765422 111233578999999999999999987752221 22346778999999999999888765


Q ss_pred             HH
Q 038494          370 AL  371 (1209)
Q Consensus       370 ~l  371 (1209)
                      .+
T Consensus       230 ~~  231 (250)
T 1njg_A          230 QA  231 (250)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.08  E-value=1.4e-10  Score=117.15  Aligned_cols=100  Identities=17%  Similarity=0.188  Sum_probs=49.8

Q ss_pred             CCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-cc-ccCCCCCCEEEccCCCCCccch--hccCCCCCCEEecc
Q 038494          568 DLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AA-IGQLKKLEILSFRYSDIKQLPL--EIGQLAQLQLLDLS  643 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~-i~~L~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~l~  643 (1209)
                      +|++|++++|.++.+ ..++.+++|++|++++|.++.+ .. ++.+++|++|++++|.+..+|.  .+..+++|++|+++
T Consensus        43 ~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~  121 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCIL  121 (176)
T ss_dssp             CCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECC
T ss_pred             CCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEec
Confidence            555555555555544 3455555555555555555544 22 2455555555555555555544  45555555555555


Q ss_pred             CCCCCcccCch---hhcCCCCCcEEECCC
Q 038494          644 NCSSLVVIAPN---VISKFSRLEELYMGD  669 (1209)
Q Consensus       644 ~~~~l~~~~~~---~l~~L~~L~~L~l~~  669 (1209)
                      + +.+...+..   .+..+++|+.|+++.
T Consensus       122 ~-N~i~~~~~~~~~~~~~l~~L~~Ld~~~  149 (176)
T 1a9n_A          122 R-NPVTNKKHYRLYVIYKVPQVRVLDFQK  149 (176)
T ss_dssp             S-SGGGGSTTHHHHHHHHCTTCSEETTEE
T ss_pred             C-CCCCCcHhHHHHHHHHCCccceeCCCc
Confidence            5 333333322   244455555555443

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.07  E-value=1.9e-10  Score=104.69  Aligned_cols=78  Identities=13%  Similarity=0.145  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhHhhHHHHHHHHHHHHHHHHHHHHHhchhHHHHhhcc-ccchHHHHHHHHHHHHHHHhh
Q 038494           10 FSGIVTEGAKALFEPIMRQISYVFKYQSYIAELKVQVKELEYKRERVGIPVREATQQR-DEIYKDVADWLNNVDEFISEG   88 (1209)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~a~~~~-~~~~~~~~~wl~~~~~~~~d~   88 (1209)
                      +.++++++++.+..           ....+.++++++++|+++|++|++||.+|+++. ...++.++.|+++||+++||+
T Consensus         3 v~~ll~KL~~ll~~-----------E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~   71 (115)
T 3qfl_A            3 ISNLIPKLGELLTE-----------EFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVI   71 (115)
T ss_dssp             TCSHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-----------HHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHH
Confidence            34555665544433           335677999999999999999999999998763 346899999999999999999


Q ss_pred             hchhhhhhhhhh
Q 038494           89 VAKSIIDDEDRA  100 (1209)
Q Consensus        89 ~~ed~ld~~~~~  100 (1209)
                        ||++|+|.+.
T Consensus        72 --ED~iD~f~~~   81 (115)
T 3qfl_A           72 --EDVVDKFLVQ   81 (115)
T ss_dssp             --HHHHHHHHHH
T ss_pred             --HHHHHHHHHH
Confidence              9999998543

>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=99.06  E-value=3e-10  Score=114.81  Aligned_cols=126  Identities=17%  Similarity=0.137  Sum_probs=109.3

Q ss_pred             hcCCeEEEEccCCCCccCCCcCCCC-CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccc-cCCCCCcE
Q 038494          517 IQKGAIAISIPYGDIQELPERLECP-QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSL-GHLINLQT  594 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~~~~~~-~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i-~~l~~L~~  594 (1209)
                      ...+++.+.+.++.+..++....+. +|++|++++|.  +..+  ..|..+++|++|++++|.++.+|..+ +.+++|++
T Consensus        17 ~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~--l~~~--~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE--IRKL--DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             CTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC--CCEE--CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             CcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCC--CCcc--cccccCCCCCEEECCCCcccccCcchhhcCCCCCE
Confidence            3567899999999999887765555 99999999984  4445  34789999999999999999998655 89999999


Q ss_pred             EeccCcccCCc-c--cccCCCCCCEEEccCCCCCccchh----ccCCCCCCEEeccCCC
Q 038494          595 LCLDWCQLEDV-A--AIGQLKKLEILSFRYSDIKQLPLE----IGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       595 L~l~~~~l~~l-~--~i~~L~~L~~L~l~~~~~~~lp~~----i~~L~~L~~L~l~~~~  646 (1209)
                      |++++|.+..+ .  .++.+++|++|++++|.+..+|..    +..+++|++|+++.+.
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            99999999887 3  689999999999999999999885    8999999999998843

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.03  E-value=1.9e-10  Score=131.49  Aligned_cols=155  Identities=17%  Similarity=0.225  Sum_probs=80.7

Q ss_pred             CccEEEeccCCCcccccCh----hhhcCCC-CCcEEEecCcccccc-cccccCC-----CCCcEEeccCcccCCc--c--
Q 038494          542 QLKLLLLLANGDSYLEISH----LFFEGTE-DLKVLSLSGIHFSSL-SSSLGHL-----INLQTLCLDWCQLEDV--A--  606 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~----~~~~~l~-~Lr~L~L~~~~i~~l-p~~i~~l-----~~L~~L~l~~~~l~~l--~--  606 (1209)
                      +|++|++++|.  +...+.    ..|.+++ +|++|+|++|.++.. +..+..+     .+|++|++++|.+...  .  
T Consensus        23 ~L~~L~Ls~n~--l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l  100 (362)
T 3goz_A           23 GVTSLDLSLNN--LYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDEL  100 (362)
T ss_dssp             TCCEEECTTSC--GGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHH
T ss_pred             CceEEEccCCC--CChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHH
Confidence            36666666653  333333    4455666 677777777766643 3344443     6677777777766543  2  


Q ss_pred             --cccCC-CCCCEEEccCCCCCccchh-----ccC-CCCCCEEeccCCCCCcccCch----hhcCCC-CCcEEECCCCCC
Q 038494          607 --AIGQL-KKLEILSFRYSDIKQLPLE-----IGQ-LAQLQLLDLSNCSSLVVIAPN----VISKFS-RLEELYMGDSFP  672 (1209)
Q Consensus       607 --~i~~L-~~L~~L~l~~~~~~~lp~~-----i~~-L~~L~~L~l~~~~~l~~~~~~----~l~~L~-~L~~L~l~~~~~  672 (1209)
                        .+..+ ++|++|++++|.+...+..     +.. .++|++|++++ +.+......    .+..++ +|++|++++|..
T Consensus       101 ~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l  179 (362)
T 3goz_A          101 VKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRG-NDLGIKSSDELIQILAAIPANVNSLNLRGNNL  179 (362)
T ss_dssp             HHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTT-SCGGGSCHHHHHHHHHTSCTTCCEEECTTSCG
T ss_pred             HHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccC-CcCCHHHHHHHHHHHhcCCccccEeeecCCCC
Confidence              23333 6677777777666644321     233 24677777766 344422211    133443 677777766532


Q ss_pred             ccccccCCCc-cchhhhCCC-CCCCEEEeeccCC
Q 038494          673 QWDKVEGGSN-ASLAELKGL-SKLTTLEIQVQDA  704 (1209)
Q Consensus       673 ~~~~~~~~~~-~~l~~L~~l-~~L~~L~l~~~~~  704 (1209)
                           ..... .....+... ++|+.|+++.+.+
T Consensus       180 -----~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i  208 (362)
T 3goz_A          180 -----ASKNCAELAKFLASIPASVTSLDLSANLL  208 (362)
T ss_dssp             -----GGSCHHHHHHHHHTSCTTCCEEECTTSCG
T ss_pred             -----chhhHHHHHHHHHhCCCCCCEEECCCCCC
Confidence                 11111 111233444 3677777766543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.03  E-value=4.2e-10  Score=128.60  Aligned_cols=146  Identities=13%  Similarity=0.103  Sum_probs=106.1

Q ss_pred             ccccChhhhcCCCCCcEEEecCccccccc-----ccccCCC-CCcEEeccCcccCCc--ccccCC-----CCCCEEEccC
Q 038494          555 YLEISHLFFEGTEDLKVLSLSGIHFSSLS-----SSLGHLI-NLQTLCLDWCQLEDV--AAIGQL-----KKLEILSFRY  621 (1209)
Q Consensus       555 ~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp-----~~i~~l~-~L~~L~l~~~~l~~l--~~i~~L-----~~L~~L~l~~  621 (1209)
                      +....+.++...++|++|+|++|.++..+     ..+..++ +|++|++++|.+...  ..+..+     ++|++|++++
T Consensus        10 ~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~   89 (362)
T 3goz_A           10 GSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSG   89 (362)
T ss_dssp             TCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCS
T ss_pred             chHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcC
Confidence            33344555666777999999999998765     6778888 999999999998775  555554     9999999999


Q ss_pred             CCCCccchh-----ccCC-CCCCEEeccCCCCCcccCchhh----cC-CCCCcEEECCCCCCccccccCCC-ccchhhhC
Q 038494          622 SDIKQLPLE-----IGQL-AQLQLLDLSNCSSLVVIAPNVI----SK-FSRLEELYMGDSFPQWDKVEGGS-NASLAELK  689 (1209)
Q Consensus       622 ~~~~~lp~~-----i~~L-~~L~~L~l~~~~~l~~~~~~~l----~~-L~~L~~L~l~~~~~~~~~~~~~~-~~~l~~L~  689 (1209)
                      |.+...+..     +..+ ++|++|++++ +.++..+...+    .. .++|++|++++|...     ... ......+.
T Consensus        90 n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~-----~~~~~~l~~~l~  163 (362)
T 3goz_A           90 NFLSYKSSDELVKTLAAIPFTITVLDLGW-NDFSSKSSSEFKQAFSNLPASITSLNLRGNDLG-----IKSSDELIQILA  163 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTSCTTCCEEECCS-SCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGG-----GSCHHHHHHHHH
T ss_pred             CcCChHHHHHHHHHHHhCCCCccEEECcC-CcCCcHHHHHHHHHHHhCCCceeEEEccCCcCC-----HHHHHHHHHHHh
Confidence            998855433     5556 8999999999 55776665443    33 369999999987431     111 12223345


Q ss_pred             CCC-CCCEEEeeccCCCC
Q 038494          690 GLS-KLTTLEIQVQDAQM  706 (1209)
Q Consensus       690 ~l~-~L~~L~l~~~~~~~  706 (1209)
                      .++ +|+.|+++++.+..
T Consensus       164 ~~~~~L~~L~Ls~n~l~~  181 (362)
T 3goz_A          164 AIPANVNSLNLRGNNLAS  181 (362)
T ss_dssp             TSCTTCCEEECTTSCGGG
T ss_pred             cCCccccEeeecCCCCch
Confidence            555 89999998876543

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.03  E-value=1e-09  Score=112.46  Aligned_cols=124  Identities=19%  Similarity=0.252  Sum_probs=106.9

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccCh-hhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccC
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISH-LFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDW  599 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~-~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~  599 (1209)
                      +.+.++++.+..+|... ..++++|++.+|  .+..++. ..|..+++|++|+|++|.++.+ |..+..+.+|++|++++
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-PLHTTELLLNDN--ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSC--CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCC-CCCCCEEECCCC--cCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            57888889998888755 349999999998  4566665 3578999999999999999977 67899999999999999


Q ss_pred             cccCCc--ccccCCCCCCEEEccCCCCCcc-chhccCCCCCCEEeccCCCCCc
Q 038494          600 CQLEDV--AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLV  649 (1209)
Q Consensus       600 ~~l~~l--~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~  649 (1209)
                      |.++.+  ..+.++++|++|++++|.++.+ |..+..+++|++|++++ +.+.
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~  139 (192)
T 1w8a_A           88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLAS-NPFN  139 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTT-CCBC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCC-CCcc
Confidence            999988  4589999999999999999966 67799999999999998 4443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.02  E-value=1.7e-09  Score=110.68  Aligned_cols=120  Identities=23%  Similarity=0.342  Sum_probs=105.1

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWC  600 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~  600 (1209)
                      +.+...++.+..+|... .+++++|++.+|.  +..++ ..|.++++|++|+|++|.++.++. .|..+.+|++|++++|
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-PRDVTELYLDGNQ--FTLVP-KELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEECCSSC--CCSCC-GGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEECCCCc--CchhH-HHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            46778888888888754 4799999999984  55677 467899999999999999998864 7999999999999999


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCC
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNC  645 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~  645 (1209)
                      .++.+  ..+.++++|++|++++|.++.+|.. +..+++|++|+++++
T Consensus        89 ~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           89 RLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             ccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCC
Confidence            99988  5699999999999999999999875 889999999999983

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.99  E-value=2.4e-09  Score=108.28  Aligned_cols=119  Identities=24%  Similarity=0.310  Sum_probs=62.6

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccccccc-ccCCCCCcEEeccCcc
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSS-LGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~-i~~l~~L~~L~l~~~~  601 (1209)
                      .+...++.+..+|... .+++++|++.++.  +..++...|.++++|++|++++|.++.+|.. +..+.+|++|++++|.
T Consensus        11 ~l~~~~~~l~~~p~~~-~~~l~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~   87 (177)
T 2o6r_A           11 EIRCNSKGLTSVPTGI-PSSATRLELESNK--LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK   87 (177)
T ss_dssp             EEECCSSCCSSCCTTC-CTTCSEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCCccCCCCC-CCCCcEEEeCCCc--ccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC
Confidence            4555555555555332 2455566655552  3344444455555566666665555555432 4555555555555555


Q ss_pred             cCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccC
Q 038494          602 LEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSN  644 (1209)
Q Consensus       602 l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~  644 (1209)
                      ++.+  ..+.++++|++|++++|.++.+|.. +..+++|++|++++
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~  133 (177)
T 2o6r_A           88 LQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT  133 (177)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             ccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecC
Confidence            5554  2245555555555555555555443 24455555555555

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

Probab=98.99  E-value=1.1e-09  Score=131.81  Aligned_cols=119  Identities=21%  Similarity=0.235  Sum_probs=83.5

Q ss_pred             ccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCC
Q 038494          543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYS  622 (1209)
Q Consensus       543 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~  622 (1209)
                      |++|++++|  .+..+|.  |.++++|++|+|++|.++.+|..++.+++|++|++++|.++.++.++++++|++|++++|
T Consensus       443 L~~L~Ls~n--~l~~lp~--~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          443 VRVLHLAHK--DLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNN  518 (567)
T ss_dssp             CSEEECTTS--CCSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSS
T ss_pred             ceEEEecCC--CCCCCcC--ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCcccCCCCCCcEEECCCC
Confidence            555555555  2334443  567778888888888888888788888888888888888777777777888888888888


Q ss_pred             CCCcc--chhccCCCCCCEEeccCCCCCcccCch---hhcCCCCCcEEE
Q 038494          623 DIKQL--PLEIGQLAQLQLLDLSNCSSLVVIAPN---VISKFSRLEELY  666 (1209)
Q Consensus       623 ~~~~l--p~~i~~L~~L~~L~l~~~~~l~~~~~~---~l~~L~~L~~L~  666 (1209)
                      .++.+  |..++++++|++|++++ +.++..|+.   .+..+++|+.|+
T Consensus       519 ~l~~~~~p~~l~~l~~L~~L~L~~-N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          519 RLQQSAAIQPLVSCPRLVLLNLQG-NSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTT-SGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCcHHHhcCCCCCEEEecC-CcCCCCccHHHHHHHHCcccCccC
Confidence            77766  67777888888888877 556555442   122356666664

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.95  E-value=4.2e-09  Score=106.48  Aligned_cols=122  Identities=19%  Similarity=0.313  Sum_probs=82.3

Q ss_pred             ccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       543 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      .+.+++.++  ....+|..+   .+.|++|++++|.++.+|. .++.+++|++|++++|.++.+  ..+..+++|++|++
T Consensus         9 ~~~l~~~~~--~l~~~p~~~---~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l   83 (177)
T 2o6r_A            9 GTEIRCNSK--GLTSVPTGI---PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYL   83 (177)
T ss_dssp             TTEEECCSS--CCSSCCTTC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCC--CCccCCCCC---CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEEC
Confidence            345565555  344455433   3577778888777776665 457777777887777777766  33677777777777


Q ss_pred             cCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          620 RYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       620 ~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      ++|.++.+|.. +.++++|++|++++ +.++.+++..+..+++|++|++++|
T Consensus        84 ~~N~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           84 HENKLQSLPNGVFDKLTQLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHTN  134 (177)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCCccccCHHHhhCCcccCEEECcC-CcceEeCHHHhcCCcccCEEEecCC
Confidence            77777776654 56777777777777 4666666665566777777777665

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

Probab=98.93  E-value=2.6e-09  Score=128.48  Aligned_cols=123  Identities=22%  Similarity=0.249  Sum_probs=102.3

Q ss_pred             CCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCC
Q 038494          568 DLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~  646 (1209)
                      .|++|+|++|.++.+|. ++.+++|++|++++|.++.+ ..++++++|++|++++|.++.+| .++++++|++|++++ +
T Consensus       442 ~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~-N  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN-N  518 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS-S
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCC-C
Confidence            59999999999999997 99999999999999999988 88999999999999999999998 899999999999999 6


Q ss_pred             CCcccC-chhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          647 SLVVIA-PNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       647 ~l~~~~-~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      .++.++ +..++.+++|++|++++|...     +..+....-...+++|+.|+
T Consensus       519 ~l~~~~~p~~l~~l~~L~~L~L~~N~l~-----~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          519 RLQQSAAIQPLVSCPRLVLLNLQGNSLC-----QEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTSGGG-----GSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCcHHHhcCCCCCEEEecCCcCC-----CCccHHHHHHHHCcccCccC
Confidence            788874 556999999999999987431     11111112234467777775

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.92  E-value=9.9e-10  Score=136.70  Aligned_cols=115  Identities=25%  Similarity=0.322  Sum_probs=103.0

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEIL  617 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L  617 (1209)
                      .+++|++|++++|.  +..++..++ ++++|++|+|++|.++.+|..|++|.+|++|+|++|.++.+ ..+++|.+|++|
T Consensus       222 ~l~~L~~L~Ls~n~--l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L  298 (727)
T 4b8c_D          222 DDQLWHALDLSNLQ--IFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF  298 (727)
T ss_dssp             CCCCCCEEECTTSC--CSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEE
T ss_pred             cCCCCcEEECCCCC--CCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEE
Confidence            68899999999984  567887776 89999999999999999999999999999999999999988 789999999999


Q ss_pred             EccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhc
Q 038494          618 SFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVIS  657 (1209)
Q Consensus       618 ~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~  657 (1209)
                      ++++|.++.+|..+++|++|++|++++ +.++..++..+.
T Consensus       299 ~L~~N~l~~lp~~~~~l~~L~~L~L~~-N~l~~~~p~~~~  337 (727)
T 4b8c_D          299 YFFDNMVTTLPWEFGNLCNLQFLGVEG-NPLEKQFLKILT  337 (727)
T ss_dssp             ECCSSCCCCCCSSTTSCTTCCCEECTT-SCCCSHHHHHHH
T ss_pred             ECCCCCCCccChhhhcCCCccEEeCCC-CccCCCChHHHh
Confidence            999999999999999999999999999 567666555444

>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=98.88  E-value=4.7e-09  Score=118.00  Aligned_cols=190  Identities=13%  Similarity=0.150  Sum_probs=118.0

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      +.....|+||+..++.+.+++..+..+.+.|+|++|+|||++|+.+++..........+++++.++......+ +.+++.
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~   95 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVV-RNQIKH   95 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHH-HTHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHH-HHHHHH
Confidence            3345679999999999999998776656999999999999999999988643221123455555443333222 222221


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchhhh-cc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-TN  311 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-~~  311 (1209)
                      +.....              .+..+++.+||+||++...  .++.+...+....        .+.++|+||+..... ..
T Consensus        96 ~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~--------~~~~~il~~~~~~~l~~~  153 (323)
T 1sxj_B           96 FAQKKL--------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYS--------NSTRFAFACNQSNKIIEP  153 (323)
T ss_dssp             HHHBCC--------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTT--------TTEEEEEEESCGGGSCHH
T ss_pred             HHhccc--------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccC--------CCceEEEEeCChhhchhH
Confidence            110000              0002468999999998752  2333322221111        567788887664321 11


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH-HHHHH
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA-LSTVA  368 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa-i~~~~  368 (1209)
                      .......+.+.+++.++..+++...+..... .-..+.+..|++.++|.|.. +..+.
T Consensus       154 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          154 LQSQCAILRYSKLSDEDVLKRLLQIIKLEDV-KYTNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhhceEEeecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            1234468999999999999999887642111 12246778999999999954 44443

>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=98.87  E-value=6.8e-11  Score=122.22  Aligned_cols=102  Identities=24%  Similarity=0.292  Sum_probs=51.7

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILS  618 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~  618 (1209)
                      .+++|++|++++|  .+..++  .+.++++|++|++++|.++.+|..+..+++|++|++++|.++.++.++++++|++|+
T Consensus        46 ~l~~L~~L~ls~n--~l~~l~--~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~~~~~l~~L~~L~  121 (198)
T 1ds9_A           46 TLKACKHLALSTN--NIEKIS--SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCSEEECSEE--EESCCC--CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHHHHHHHHHSSEEE
T ss_pred             cCCCCCEEECCCC--CCcccc--ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCCccccCCCCCEEE
Confidence            3455555555554  233333  234455555555555555555554444555555555555555544455555555555


Q ss_pred             ccCCCCCccch--hccCCCCCCEEeccC
Q 038494          619 FRYSDIKQLPL--EIGQLAQLQLLDLSN  644 (1209)
Q Consensus       619 l~~~~~~~lp~--~i~~L~~L~~L~l~~  644 (1209)
                      +++|.++.+|.  .+.++++|++|++++
T Consensus       122 l~~N~i~~~~~~~~l~~l~~L~~L~l~~  149 (198)
T 1ds9_A          122 MSNNKITNWGEIDKLAALDKLEDLLLAG  149 (198)
T ss_dssp             ESEEECCCHHHHHHHTTTTTCSEEEECS
T ss_pred             CCCCcCCchhHHHHHhcCCCCCEEEecC
Confidence            55555554432  345555555555554

>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=98.86  E-value=9e-11  Score=121.25  Aligned_cols=153  Identities=22%  Similarity=0.260  Sum_probs=114.1

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEcc
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFR  620 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~  620 (1209)
                      .++...+.+....+..++. .|.++++|++|++++|.++.+| .+..+++|++|++++|.++.+ ..+..+++|++|+++
T Consensus        24 ~l~~~~l~~~~~~l~~l~~-~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~  101 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDA-TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWIS  101 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHH-HHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEE
T ss_pred             chheeEeccccCcHhhhhH-HHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECc
Confidence            4455555544323445554 5688999999999999999998 899999999999999999888 666778999999999


Q ss_pred             CCCCCccchhccCCCCCCEEeccCCCCCcccCc-hhhcCCCCCcEEECCCCCCccccccC-C-CccchhhhCCCCCCCEE
Q 038494          621 YSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAP-NVISKFSRLEELYMGDSFPQWDKVEG-G-SNASLAELKGLSKLTTL  697 (1209)
Q Consensus       621 ~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~~~~~~~~~-~-~~~~l~~L~~l~~L~~L  697 (1209)
                      +|.++.+| .+.++++|++|++++ +.+..++. ..+..+++|++|++++|......... . .......+..+++|+.|
T Consensus       102 ~N~l~~l~-~~~~l~~L~~L~l~~-N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~L  179 (198)
T 1ds9_A          102 YNQIASLS-GIEKLVNLRVLYMSN-NKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKL  179 (198)
T ss_dssp             EEECCCHH-HHHHHHHSSEEEESE-EECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEE
T ss_pred             CCcCCcCC-ccccCCCCCEEECCC-CcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEE
Confidence            99999987 688999999999999 56766554 45889999999999887421100000 0 00111236677888887


Q ss_pred             E
Q 038494          698 E  698 (1209)
Q Consensus       698 ~  698 (1209)
                      +
T Consensus       180 d  180 (198)
T 1ds9_A          180 D  180 (198)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=98.84  E-value=1e-08  Score=102.54  Aligned_cols=99  Identities=20%  Similarity=0.322  Sum_probs=73.0

Q ss_pred             CcEEEecCcccccccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCC
Q 038494          569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNC  645 (1209)
Q Consensus       569 Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~  645 (1209)
                      .+.++++++.++.+|..+.  .+|++|++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ 
T Consensus        11 ~~~l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~-   87 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND-   87 (170)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS-
T ss_pred             CCEEEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC-
Confidence            4677777777777776653  6778888888877776  4577778888888888877777665 46778888888877 


Q ss_pred             CCCcccCchhhcCCCCCcEEECCCC
Q 038494          646 SSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       646 ~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +.++.+++..+.++++|++|++++|
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           88 NQLKSIPRGAFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CccCEeCHHHhcCCCCCCEEEeCCC
Confidence            5677777666777777777777665

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.84  E-value=1e-08  Score=102.84  Aligned_cols=98  Identities=21%  Similarity=0.398  Sum_probs=67.7

Q ss_pred             cEEEecCcccccccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCC
Q 038494          570 KVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       570 r~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~  646 (1209)
                      +.++++++.++.+|..+.  .+|++|++++|.++.+  ..+.++++|++|++++|.++.+|.. +.++++|++|++++ +
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 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND-N   91 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-S
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC-C
Confidence            567777777777776554  6777777777777666  4567777777777777777777665 36777777777777 5


Q ss_pred             CCcccCchhhcCCCCCcEEECCCC
Q 038494          647 SLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       647 ~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .++.+++..+..+++|++|++++|
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~N  115 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYNN  115 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCSS
T ss_pred             ccceeCHHHhccccCCCEEEeCCC
Confidence            666666655666777777776655

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.74  E-value=2.5e-08  Score=100.00  Aligned_cols=102  Identities=21%  Similarity=0.271  Sum_probs=69.8

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcccCCc-c-cccCCCCCCEEEcc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV-A-AIGQLKKLEILSFR  620 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~l~~l-~-~i~~L~~L~~L~l~  620 (1209)
                      +.+++.++  ....+|..+   .+.|++|+|++|.++.+ |..+..+++|++|+|++|.++.+ . .+.++++|++|+++
T Consensus        15 ~~l~~~~n--~l~~iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           15 TLVNCQNI--RLASVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SEEECCSS--CCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             cEEEeCCC--CCCccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECC
Confidence            44555554  344455433   26777777777777766 45677777888888888877777 3 35777888888888


Q ss_pred             CCCCCccchh-ccCCCCCCEEeccCCCCCccc
Q 038494          621 YSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVI  651 (1209)
Q Consensus       621 ~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~  651 (1209)
                      +|.++.+|.. +.++++|++|++++ +.+...
T Consensus        90 ~N~l~~l~~~~~~~l~~L~~L~L~~-N~~~c~  120 (174)
T 2r9u_A           90 DNHLKSIPRGAFDNLKSLTHIYLYN-NPWDCE  120 (174)
T ss_dssp             SSCCCCCCTTTTTTCTTCSEEECCS-SCBCTT
T ss_pred             CCccceeCHHHhccccCCCEEEeCC-CCcccc
Confidence            8877777765 77788888888877 444443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.69  E-value=3.6e-07  Score=99.40  Aligned_cols=172  Identities=10%  Similarity=0.089  Sum_probs=109.0

Q ss_pred             chhhHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhhccc---C-C-EEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV---F-D-KVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~---f-~-~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .+.||+++++.+...|.    .+..+.+.|+|++|+|||++|+.++++......   . . ..+++++..-.+...++..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            47899999999998776    456678999999999999999999998864211   1 1 4567887787888999999


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHH--hcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCc--EEEEeccch
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRL--TKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRR--TIILTSRSK  306 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l--~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s--~ilvTtR~~  306 (1209)
                      |++++.............+..+...+  ..++++++++|+++...+-+.+...+.+       ....++  .||.++...
T Consensus       101 I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~-------~~~~~s~~~vI~i~n~~  173 (318)
T 3te6_A          101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKW-------ISSKNSKLSIICVGGHN  173 (318)
T ss_dssp             HHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHH-------HHCSSCCEEEEEECCSS
T ss_pred             HHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhc-------ccccCCcEEEEEEecCc
Confidence            99999654322222244455555554  2357899999999876421111111100       000222  233334332


Q ss_pred             hhhcc----cC---CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          307 HLLTN----DM---NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       307 ~v~~~----~~---~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      +....    ..   -....+.+.+++.+|-.+++.+++.
T Consensus       174 d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          174 VTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             CCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHH
Confidence            21110    00   1125799999999999999998874

>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=98.69  E-value=6.2e-08  Score=96.76  Aligned_cols=100  Identities=22%  Similarity=0.231  Sum_probs=68.2

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEcc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR  620 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~  620 (1209)
                      ++++++++  ....+|..+   .+.|++|+|++|.++.+ |..+..+.+|++|++++|.++.+  ..+.++++|++|+++
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~   86 (170)
T 3g39_A           12 TTVDCSGK--SLASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             TEEECTTS--CCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CEEEeCCC--CcCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            44555554  234444433   36677777777777766 45677777888888888777776  345777888888888


Q ss_pred             CCCCCccchh-ccCCCCCCEEeccCCCCCc
Q 038494          621 YSDIKQLPLE-IGQLAQLQLLDLSNCSSLV  649 (1209)
Q Consensus       621 ~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~  649 (1209)
                      +|.++.+|.. +.++++|++|++++ +.+.
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~-N~~~  115 (170)
T 3g39_A           87 DNQLKSIPRGAFDNLKSLTHIWLLN-NPWD  115 (170)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCS-SCBC
T ss_pred             CCccCEeCHHHhcCCCCCCEEEeCC-CCCC
Confidence            8877777664 77788888888877 4443

>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=98.68  E-value=3.9e-08  Score=110.68  Aligned_cols=189  Identities=13%  Similarity=0.139  Sum_probs=116.9

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ....++|++..++.+.+++..+..+.+.|+|++|+||||+|+.+++.......-...+.+..++......+.. .+    
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~----   97 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIRE-KV----   97 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHH-HH----
T ss_pred             CHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHH-HH----
Confidence            3567899999999999999877666799999999999999999998864321111234444443211111111 01    


Q ss_pred             CCCCCCCChHHHHHHHHHH--HhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchhhh-cc
Q 038494          237 LNFDLNDSKPHRAKQLCQR--LTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-TN  311 (1209)
Q Consensus       237 ~~~~~~~~~~~~~~~l~~~--l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-~~  311 (1209)
                                   ......  +..+++.++|+||++...  .++.+...+....        .+.++|+||...... ..
T Consensus        98 -------------~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~--------~~~~~i~~~~~~~~l~~~  156 (327)
T 1iqp_A           98 -------------KEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFS--------SNVRFILSCNYSSKIIEP  156 (327)
T ss_dssp             -------------HHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCHH
T ss_pred             -------------HHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcC--------CCCeEEEEeCCccccCHH
Confidence                         110000  111467899999998752  2333322221111        567788888764321 11


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHh
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALK  372 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~  372 (1209)
                      .......+.+.+++.++..+++...+..... .-..+..+.|++.++|.|..+..+...+.
T Consensus       157 l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          157 IQSRCAIFRFRPLRDEDIAKRLRYIAENEGL-ELTEEGLQAILYIAEGDMRRAINILQAAA  216 (327)
T ss_dssp             HHHTEEEEECCCCCHHHHHHHHHHHHHTTTC-EECHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHhhCcEEEecCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            1123458899999999999999887653221 12346778999999999987665554433

>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=98.59  E-value=2.4e-07  Score=103.71  Aligned_cols=187  Identities=11%  Similarity=0.151  Sum_probs=115.6

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      .....++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++.......-...+.++.+.......+        
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--------   85 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVV--------   85 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTS--------
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHH--------
Confidence            335679999999999999988766656899999999999999999988632211012233444432111100        


Q ss_pred             CCCCCCCCChHHHHHHHHHH--HhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhc
Q 038494          236 DLNFDLNDSKPHRAKQLCQR--LTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLT  310 (1209)
Q Consensus       236 ~~~~~~~~~~~~~~~~l~~~--l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~  310 (1209)
                                ..........  +..+++.++|+||++...  ..+.+...+....        .+.++|+||.... +..
T Consensus        86 ----------~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~--------~~~~~i~~~~~~~~l~~  147 (319)
T 2chq_A           86 ----------RHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYS--------KSCRFILSCNYVSRIIE  147 (319)
T ss_dssp             ----------SHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSS--------SSEEEEEEESCGGGSCH
T ss_pred             ----------HHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcC--------CCCeEEEEeCChhhcch
Confidence                      1111111100  112467899999998752  2333433332222        5667777776543 211


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      ........+.+.+++.++..+++...+..... .-..+..+.|++.++|.+..+.....
T Consensus       148 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          148 PIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV-KITEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             HHHTTCEEEECCCCCHHHHHHHHHHHHHTTCC-CBCHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             HHHhhCeEEEecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            11234468999999999999999887753222 12356677899999999886655443

>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=98.46  E-value=6.4e-07  Score=100.50  Aligned_cols=89  Identities=19%  Similarity=0.243  Sum_probs=58.0

Q ss_pred             CCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCc-EEECCCCCCccccccCCCccchhhh
Q 038494          611 LKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLE-ELYMGDSFPQWDKVEGGSNASLAEL  688 (1209)
Q Consensus       611 L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~-~L~l~~~~~~~~~~~~~~~~~l~~L  688 (1209)
                      +.+|+.|++++|.++.+|.. +.++.+|+.+++.. + ++.++...|.++.+|+ .+.+.....   .+      ....+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~-n-i~~I~~~aF~~~~~L~~~l~l~~~l~---~I------~~~aF  293 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPH-N-LKTIGQRVFSNCGRLAGTLELPASVT---AI------EFGAF  293 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCT-T-CCEECTTTTTTCTTCCEEEEECTTCC---EE------CTTTT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCc-c-cceehHHHhhCChhccEEEEEcccce---EE------chhhh
Confidence            56777777777777777654 67777777777776 2 6667777777777777 777654211   00      12345


Q ss_pred             CCCCCCCEEEeeccCCCCCCcc
Q 038494          689 KGLSKLTTLEIQVQDAQMLPQD  710 (1209)
Q Consensus       689 ~~l~~L~~L~l~~~~~~~~~~~  710 (1209)
                      .++.+|+.+.+..+.+..++..
T Consensus       294 ~~c~~L~~l~l~~n~i~~I~~~  315 (329)
T 3sb4_A          294 MGCDNLRYVLATGDKITTLGDE  315 (329)
T ss_dssp             TTCTTEEEEEECSSCCCEECTT
T ss_pred             hCCccCCEEEeCCCccCccchh
Confidence            6677777777766666555543

>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=98.45  E-value=8.2e-07  Score=101.80  Aligned_cols=195  Identities=11%  Similarity=0.136  Sum_probs=112.9

Q ss_pred             ccchhhHHHHHHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhC
Q 038494          158 FEAFDSRMKLFQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLD  236 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~  236 (1209)
                      ...++||+..++.+.+++..+. ...+.|+|++|+||||+|+.+++.......+..   ..+...    .....+.....
T Consensus        15 ~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~---~~~~~~----~~~~~~~~~~~   87 (373)
T 1jr3_A           15 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVC----DNCREIEQGRF   87 (373)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS---SCCSSS----HHHHHHHTSCC
T ss_pred             hhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC---CCCccc----HHHHHHhccCC
Confidence            4568999999999999987554 357889999999999999999988754221100   000000    00011111000


Q ss_pred             -----CCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccc
Q 038494          237 -----LNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS  305 (1209)
Q Consensus       237 -----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~  305 (1209)
                           ....... ..+..+.+.+.+.    .+++.+||+||++...  .++.+...+....        .+..+|++|..
T Consensus        88 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~--------~~~~~Il~~~~  158 (373)
T 1jr3_A           88 VDLIEIDAASRT-KVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP--------EHVKFLLATTD  158 (373)
T ss_dssp             SSCEEEETTCSC-CSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCC--------SSEEEEEEESC
T ss_pred             CceEEecccccC-CHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCC--------CceEEEEEeCC
Confidence                 0000000 0112333444333    2457899999998652  2333322221111        45667777654


Q ss_pred             hh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          306 KH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       306 ~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      .. +..........+++.+++.++..+++.+.+..... .-..+.+..|++.++|.|..+..+..
T Consensus       159 ~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~-~~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          159 PQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-AHEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             GGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             hHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            43 22112234578999999999999999877642111 12245677899999999998776653

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.42  E-value=3.4e-07  Score=93.81  Aligned_cols=153  Identities=14%  Similarity=0.195  Sum_probs=88.8

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc-----cCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-----VFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-----~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...|+||+++++.+.+++.....+.+.|+|++|+|||++|+.+++......     ....+++++++.      +.    
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~----   90 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV----   90 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------HH----
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------Hh----
Confidence            557899999999999999876667889999999999999999998875311     112345554321      10    


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCcccC---------ccccCCCCCCCCccccccccCCcEEEEe
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKLG---------LEEIGIPFGDVDEKDRKQDLRRRTIILT  302 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~---------~~~l~~~~~~~~~~~~~~~~~~s~ilvT  302 (1209)
                         ... ............+...+. .+++.+||+||++....         +..+...+         ....+..+|+|
T Consensus        91 ---~~~-~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~---------~~~~~~~~i~~  157 (195)
T 1jbk_A           91 ---AGA-KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPA---------LARGELHCVGA  157 (195)
T ss_dssp             ---TTT-CSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHH---------HHTTSCCEEEE
T ss_pred             ---ccC-CccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHh---------hccCCeEEEEe
Confidence               000 000001222333333332 35678999999987521         01100000         01134556666


Q ss_pred             ccchhhh------cccCCcceEEEcCCCCHHHHHHHH
Q 038494          303 SRSKHLL------TNDMNSQKIFLIEVLSKEEALQFF  333 (1209)
Q Consensus       303 tR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf  333 (1209)
                      |......      .........+.+.+++.++..+++
T Consensus       158 ~~~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          158 TTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             ECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CCHHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            6654311      111223347889999998877654

>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=98.40  E-value=6.1e-07  Score=101.66  Aligned_cols=96  Identities=22%  Similarity=0.248  Sum_probs=53.9

Q ss_pred             EEecCc-ccccccccccCCCCCcEEeccC-cccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCC
Q 038494          572 LSLSGI-HFSSLSSSLGHLINLQTLCLDW-CQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       572 L~L~~~-~i~~lp~~i~~l~~L~~L~l~~-~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~  646 (1209)
                      ++++++ .++.+|. +..+.+|++|+|++ |.++.+  ..|++|.+|++|+|++|.++.+|+ .+.+|++|++|++++ +
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 LRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF-N   90 (347)
T ss_dssp             EECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS-S
T ss_pred             EEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC-C
Confidence            355555 5555665 66666666666664 555555  345566666666666666655543 345666666666666 4


Q ss_pred             CCcccCchhhcCCCCCcEEECCCC
Q 038494          647 SLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       647 ~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .++.+|+..+..+. |+.|++.+|
T Consensus        91 ~l~~~~~~~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           91 ALESLSWKTVQGLS-LQELVLSGN  113 (347)
T ss_dssp             CCSCCCSTTTCSCC-CCEEECCSS
T ss_pred             ccceeCHHHcccCC-ceEEEeeCC
Confidence            55555554344333 566655544

>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=98.27  E-value=1.9e-06  Score=97.55  Aligned_cols=92  Identities=26%  Similarity=0.289  Sum_probs=72.2

Q ss_pred             ccccChhhhcCCCCCcEEEecC-ccccccc-ccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh
Q 038494          555 YLEISHLFFEGTEDLKVLSLSG-IHFSSLS-SSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE  630 (1209)
Q Consensus       555 ~~~~~~~~~~~l~~Lr~L~L~~-~~i~~lp-~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~  630 (1209)
                      ...+|.  +..+++|++|+|++ |.++.+| ..|+.|.+|++|+|++|.++.+  ..|.+|++|++|+|++|.++.+|..
T Consensus        21 l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~   98 (347)
T 2ifg_A           21 LDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWK   98 (347)
T ss_dssp             CTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCST
T ss_pred             CCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeCHH
Confidence            445666  67788888888886 8888776 4688888999999999888887  4678889999999999988888876


Q ss_pred             ccCCCCCCEEeccCCCCCc
Q 038494          631 IGQLAQLQLLDLSNCSSLV  649 (1209)
Q Consensus       631 i~~L~~L~~L~l~~~~~l~  649 (1209)
                      +.....|++|++.+ +.+.
T Consensus        99 ~~~~~~L~~l~l~~-N~~~  116 (347)
T 2ifg_A           99 TVQGLSLQELVLSG-NPLH  116 (347)
T ss_dssp             TTCSCCCCEEECCS-SCCC
T ss_pred             HcccCCceEEEeeC-CCcc
Confidence            54444489999887 4443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.27  E-value=5.6e-05  Score=86.51  Aligned_cols=121  Identities=17%  Similarity=0.166  Sum_probs=87.7

Q ss_pred             CCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCE
Q 038494          540 CPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEI  616 (1209)
Q Consensus       540 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~  616 (1209)
                      +..+..+.+-.   .+..+....|.++ +|+.+.+..+ ++.++. +|.++ +|+.+.+.. .++.+  ..|.++.+|+.
T Consensus       112 ~~~l~~i~ip~---~i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~-~l~~I~~~aF~~c~~L~~  184 (401)
T 4fdw_A          112 LKGYNEIILPN---SVKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPS-TLEQLKEDIFYYCYNLKK  184 (401)
T ss_dssp             CSSCSEEECCT---TCCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTTC-CCCEEECCT-TCCEECSSTTTTCTTCCE
T ss_pred             cCCccEEEECC---ccCEehHhhcccC-CccEEEeCCC-ccEECHHhcCCC-CceEEEeCC-CccEehHHHhhCcccCCe
Confidence            35555555543   3556777777775 6888888765 666654 55564 688888875 56666  67888888999


Q ss_pred             EEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          617 LSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       617 L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      +++..|.++.+|...-...+|+.+.+..  .++.++...+.++++|+.+.+..
T Consensus       185 l~l~~n~l~~I~~~aF~~~~L~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          185 ADLSKTKITKLPASTFVYAGIEEVLLPV--TLKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             EECTTSCCSEECTTTTTTCCCSEEECCT--TCCEECTTTTTTCTTCCCEECCT
T ss_pred             eecCCCcceEechhhEeecccCEEEeCC--chheehhhHhhCCCCCCEEecCC
Confidence            9988888888876644468888888874  47777777788888888888754

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.26  E-value=9.1e-06  Score=93.88  Aligned_cols=183  Identities=16%  Similarity=0.214  Sum_probs=110.5

Q ss_pred             ccccccchhhHHHHH---HHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          154 QAKDFEAFDSRMKLF---QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~---~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .+.....++|.+..+   ..+...+..+..+.+.|+|++|+||||+|+.+++.....  |   ..+.... ....++ +.
T Consensus        21 rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~--f---~~l~a~~-~~~~~i-r~   93 (447)
T 3pvs_A           21 RPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANAD--V---ERISAVT-SGVKEI-RE   93 (447)
T ss_dssp             CCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCE--E---EEEETTT-CCHHHH-HH
T ss_pred             CCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCC--e---EEEEecc-CCHHHH-HH
Confidence            344567899998888   778888887777889999999999999999999876432  2   2222221 122222 11


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEE-eccchh
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIIL-TSRSKH  307 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilv-TtR~~~  307 (1209)
                      ++                 .........+++.+|++|+++...  ..+.+...+..          ....+|. ||.+..
T Consensus        94 ~~-----------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~----------~~v~lI~att~n~~  146 (447)
T 3pvs_A           94 AI-----------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED----------GTITFIGATTENPS  146 (447)
T ss_dssp             HH-----------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT----------TSCEEEEEESSCGG
T ss_pred             HH-----------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc----------CceEEEecCCCCcc
Confidence            11                 111111223578999999998762  22233222211          2233443 444432


Q ss_pred             --hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCC------CCCCcchHHHHHHHHHhCCChhHHHHHHHH
Q 038494          308 --LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNS------AKASAFQPLADEIVGKCGGLPVALSTVANA  370 (1209)
Q Consensus       308 --v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~------~~~~~~~~~~~~i~~~~~glPLai~~~~~~  370 (1209)
                        +.........++.+.+++.++...++.+.+...      ....-..+..+.|++.++|.+-.+..+...
T Consensus       147 ~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~  217 (447)
T 3pvs_A          147 FELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEM  217 (447)
T ss_dssp             GSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             cccCHHHhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence              111122345688999999999999998886531      111223567778999999988766655443

>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=98.26  E-value=7.6e-07  Score=94.99  Aligned_cols=176  Identities=15%  Similarity=0.172  Sum_probs=105.4

Q ss_pred             ccchhhHH---HHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          158 FEAFDSRM---KLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       158 ~~~~~gR~---~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ...|+|++   ..++.+..+......+.+.|+|++|+||||+|+.+++.....  ...+.|++++.....      +.  
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~------~~--   96 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGIHASI------ST--   96 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS------CG--
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH------HH--
Confidence            45677643   556667666665566789999999999999999999887653  335677776542110      00  


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----ccccCCCCCCCCccccccccCCc-EEEEeccchhhh
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----LEEIGIPFGDVDEKDRKQDLRRR-TIILTSRSKHLL  309 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----~~~l~~~~~~~~~~~~~~~~~~s-~ilvTtR~~~v~  309 (1209)
                                      ...+.+  .++.+||+||++....    .+.+...+...       ...+. ++|+||+.....
T Consensus        97 ----------------~~~~~~--~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~-------~~~~~~~ii~~~~~~~~~  151 (242)
T 3bos_A           97 ----------------ALLEGL--EQFDLICIDDVDAVAGHPLWEEAIFDLYNRV-------AEQKRGSLIVSASASPME  151 (242)
T ss_dssp             ----------------GGGTTG--GGSSEEEEETGGGGTTCHHHHHHHHHHHHHH-------HHHCSCEEEEEESSCTTT
T ss_pred             ----------------HHHHhc--cCCCEEEEeccccccCCHHHHHHHHHHHHHH-------HHcCCCeEEEEcCCCHHH
Confidence                            000111  2457899999986532    11121111000       00232 477777643210


Q ss_pred             -----cccCC---cceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          310 -----TNDMN---SQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       310 -----~~~~~---~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                           .....   ....+.+++++.++..+++...+.... ..-..+..+.|++.++|.+-.+..+..
T Consensus       152 ~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          152 AGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRG-LQLPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             TTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTT-CCCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHccCCHHHHHHHHH
Confidence                 00011   126899999999999999988764211 122356778999999998877665543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.25  E-value=5.3e-06  Score=90.81  Aligned_cols=182  Identities=16%  Similarity=0.167  Sum_probs=106.2

Q ss_pred             cccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ....++|.++.++.+.+++..             ...+.+.|+|++|+|||++|+.+++.....     .+.+..+.-..
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~-----~~~v~~~~~~~   89 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT-----FIRVVGSELVK   89 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE-----EEEEEGGGGCC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehHHHHH
Confidence            366789999999998887642             345678999999999999999999876432     23333322110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----------------ccccCCCCCCCCc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----------------LEEIGIPFGDVDE  287 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----------------~~~l~~~~~~~~~  287 (1209)
                                    .  ...........+.......++.+|++||++....                +..+...+..   
T Consensus        90 --------------~--~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~---  150 (285)
T 3h4m_A           90 --------------K--FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDG---  150 (285)
T ss_dssp             --------------C--STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHT---
T ss_pred             --------------h--ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhC---
Confidence                          0  0011123334444444445678999999976410                0000000000   


Q ss_pred             cccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC-Chh
Q 038494          288 KDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG-LPV  362 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPL  362 (1209)
                         .....+..||.||..........    .....+.++..+.++..+++...+.......  ......+++.+.| .|-
T Consensus       151 ---~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~--~~~~~~l~~~~~g~~~~  225 (285)
T 3h4m_A          151 ---FDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAE--DVNLEEIAKMTEGCVGA  225 (285)
T ss_dssp             ---TCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCT--TCCHHHHHHHCTTCCHH
T ss_pred             ---CCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCC--cCCHHHHHHHcCCCCHH
Confidence               00113566777776553321111    2235799999999999999998876332211  1124577788877 454


Q ss_pred             HHHHH
Q 038494          363 ALSTV  367 (1209)
Q Consensus       363 ai~~~  367 (1209)
                      .|..+
T Consensus       226 ~i~~l  230 (285)
T 3h4m_A          226 ELKAI  230 (285)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55444

>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=98.23  E-value=2.1e-05  Score=87.95  Aligned_cols=186  Identities=18%  Similarity=0.153  Sum_probs=109.8

Q ss_pred             cccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ....|+|++..++.+.+++..     .....+.|+|++|+|||++|+.+++....     ..+++..+......++...+
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~~~~l~~~l   84 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLAAIL   84 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCSHHHHHHHH
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCChHHHHHHH
Confidence            356799999999988888752     23467889999999999999999987642     23455554433332222111


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCC--------CCCcc-c-cccccCCcEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFG--------DVDEK-D-RKQDLRRRTI  299 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~--------~~~~~-~-~~~~~~~s~i  299 (1209)
                      ..                     .+  .++.+|++||++...  ..+.+...+.        ..... . ......+.++
T Consensus        85 ~~---------------------~~--~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           85 AN---------------------SL--EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             TT---------------------TC--CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             HH---------------------hc--cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence            10                     01  245688888887652  1111100000        00000 0 0000124556


Q ss_pred             EEeccchhhhcc-cCCc-ceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHH
Q 038494          300 ILTSRSKHLLTN-DMNS-QKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANAL  371 (1209)
Q Consensus       300 lvTtR~~~v~~~-~~~~-~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l  371 (1209)
                      |.||........ .... ...+.+.+++.+|...++...+..... .-..+..+.|++.++|.|-.+..+...+
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~-~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV-RITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC-CCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            666664432211 1122 258999999999999999887753221 2235678899999999998887776554

>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=98.21  E-value=2.6e-06  Score=96.77  Aligned_cols=197  Identities=11%  Similarity=0.132  Sum_probs=114.1

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC-CEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF-DKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      .....++|+++.++.+..++..+..+.+.|+|++|+||||+|+.+++.......+ ..+..++.+.......+.. ....
T Consensus        34 ~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  112 (353)
T 1sxj_D           34 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVRE-KVKN  112 (353)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTT-HHHH
T ss_pred             CCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHH-HHHH
Confidence            3456789999999999999987655558999999999999999999886421111 1234445444333333222 2211


Q ss_pred             hC-CCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhc
Q 038494          235 LD-LNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLT  310 (1209)
Q Consensus       235 l~-~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~  310 (1209)
                      +. ........ .     .......+++-+|++|+++...  ..+.+...+....        ...++|++|.... +..
T Consensus       113 ~~~~~~~~~~~-~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~--------~~~~~il~~~~~~~l~~  178 (353)
T 1sxj_D          113 FARLTVSKPSK-H-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS--------GVTRFCLICNYVTRIID  178 (353)
T ss_dssp             HHHSCCCCCCT-T-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCH
T ss_pred             Hhhhcccccch-h-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcC--------CCceEEEEeCchhhCcc
Confidence            11 10000000 0     0000112355799999987652  1222221111111        3556777665432 211


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                      ........+.+.+++.++....+...+..... .-..+..+.|++.++|.|-.+..+.
T Consensus       179 ~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          179 PLASQCSKFRFKALDASNAIDRLRFISEQENV-KCDDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             HHHHHSEEEECCCCCHHHHHHHHHHHHHTTTC-CCCHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             hhhccCceEEeCCCCHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            11123358899999999999999887642221 1235678899999999988655443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.21  E-value=2.9e-07  Score=104.47  Aligned_cols=152  Identities=14%  Similarity=0.027  Sum_probs=74.5

Q ss_pred             hcCCeEEEEccCCCCccCCC-----cC--CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-----cc
Q 038494          517 IQKGAIAISIPYGDIQELPE-----RL--ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-----SS  584 (1209)
Q Consensus       517 ~~~~~r~l~l~~~~~~~~~~-----~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-----p~  584 (1209)
                      ....++.+.+.++.+.....     ..  ..++|++|++++|.... .-...++..+++|+.|+|++|.++..     ..
T Consensus        70 ~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~-~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~  148 (372)
T 3un9_A           70 VLSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDP-AGLRTLLPVFLRARKLGLQLNSLGPEACKDLRD  148 (372)
T ss_dssp             HHTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCH-HHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHH
T ss_pred             HHhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCH-HHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHH
Confidence            44567788887776643211     00  22466666666653111 11112223344566666666666422     11


Q ss_pred             cc-cCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCCc-----cchhccCCCCCCEEeccCCCCCcccC
Q 038494          585 SL-GHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIKQ-----LPLEIGQLAQLQLLDLSNCSSLVVIA  652 (1209)
Q Consensus       585 ~i-~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~~-----lp~~i~~L~~L~~L~l~~~~~l~~~~  652 (1209)
                      .+ ....+|++|+|++|.++..      ..+..+++|++|++++|.+..     ++..+...++|++|++++| .++...
T Consensus       149 ~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N-~i~~~g  227 (372)
T 3un9_A          149 LLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYN-GAGDTA  227 (372)
T ss_dssp             HHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSS-CCCHHH
T ss_pred             HHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCC-CCCHHH
Confidence            12 2345566666666665431      333455666666666665542     2334455556666666663 333221


Q ss_pred             c----hhhcCCCCCcEEECCCC
Q 038494          653 P----NVISKFSRLEELYMGDS  670 (1209)
Q Consensus       653 ~----~~l~~L~~L~~L~l~~~  670 (1209)
                      .    ..+...++|++|++++|
T Consensus       228 ~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          228 ALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             HHHHHHHHHHCSSCCEEECTTS
T ss_pred             HHHHHHHHHhCCCCCEEeccCC
Confidence            1    11233455556655554

>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=98.20  E-value=4.1e-06  Score=93.91  Aligned_cols=166  Identities=11%  Similarity=0.091  Sum_probs=112.1

Q ss_pred             CCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccc-------c---------
Q 038494          519 KGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHF-------S---------  580 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i-------~---------  580 (1209)
                      .+++.+.+.. .+..++..  ..|++|+.+.+..+  .+..+++..|.++..+..+.+.....       .         
T Consensus       101 ~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n--~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          101 QTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKK--TAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             TTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCS--SCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             CCCcEEECCc-cccchhHHHhhcCcccceEEcCCC--CccccchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            4555666655 55555543  26777777777766  34456666666666565555443110       0         


Q ss_pred             -----------ccccc---------------------------c-cCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          581 -----------SLSSS---------------------------L-GHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       581 -----------~lp~~---------------------------i-~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                                 .++..                           + ..+.+|+.|++++|.++.+  ..|.++.+|+.+++
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l  257 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKL  257 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEEC
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEEC
Confidence                       00000                           0 1378999999999999888  67999999999999


Q ss_pred             cCCCCCccch-hccCCCCCC-EEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEE
Q 038494          620 RYSDIKQLPL-EIGQLAQLQ-LLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL  697 (1209)
Q Consensus       620 ~~~~~~~lp~-~i~~L~~L~-~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L  697 (1209)
                      ..+ ++.++. .+.++.+|+ .+++..  .++.++...|.++++|+++++..+....  .      ....+.++++|+.+
T Consensus       258 ~~n-i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~n~i~~--I------~~~aF~~~~~L~~l  326 (329)
T 3sb4_A          258 PHN-LKTIGQRVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATGDKITT--L------GDELFGNGVPSKLI  326 (329)
T ss_dssp             CTT-CCEECTTTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECSSCCCE--E------CTTTTCTTCCCCEE
T ss_pred             Ccc-cceehHHHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCCCccCc--c------chhhhcCCcchhhh
Confidence            987 777765 488999999 999987  6778888889999999999986543211  0      12246677888876


Q ss_pred             E
Q 038494          698 E  698 (1209)
Q Consensus       698 ~  698 (1209)
                      .
T Consensus       327 y  327 (329)
T 3sb4_A          327 Y  327 (329)
T ss_dssp             E
T ss_pred             c
Confidence            5

>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=98.19  E-value=4.1e-05  Score=82.48  Aligned_cols=183  Identities=13%  Similarity=0.164  Sum_probs=99.2

Q ss_pred             ccchhhHHHHHHHHHHHHh---C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ...++|.+..++.+.+++.   .         ...+.+.|+|++|+|||++|+.+++....     ..+.+..+.-.+. 
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~~~~~~~~~~-   78 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV-----PFLAMAGAEFVEV-   78 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----CEEEEETTTTSSS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEechHHHHhh-
Confidence            4567787777766655443   2         22356889999999999999999987643     1344554432110 


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-------------c----cccCCCCCCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-------------L----EEIGIPFGDVDEK  288 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-------------~----~~l~~~~~~~~~~  288 (1209)
                                     ...........+........+.+|++||++....             .    ..+...+...   
T Consensus        79 ---------------~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~---  140 (262)
T 2qz4_A           79 ---------------IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGM---  140 (262)
T ss_dssp             ---------------STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTC---
T ss_pred             ---------------ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCc---
Confidence                           0001122333444444445679999999986511             0    0010000000   


Q ss_pred             ccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-H
Q 038494          289 DRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-A  363 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-a  363 (1209)
                         ....+..||.||..........    .....+.++..+.++-.+++...+...............+++.+.|.+- .
T Consensus       141 ---~~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~  217 (262)
T 2qz4_A          141 ---GTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGAD  217 (262)
T ss_dssp             ---CTTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHH
T ss_pred             ---CCCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHH
Confidence               0013455666665543221111    2236788999999999999988765322222222234678888887654 4


Q ss_pred             HHHH
Q 038494          364 LSTV  367 (1209)
Q Consensus       364 i~~~  367 (1209)
                      |..+
T Consensus       218 l~~l  221 (262)
T 2qz4_A          218 IANI  221 (262)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>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=98.18  E-value=3e-05  Score=83.98  Aligned_cols=184  Identities=17%  Similarity=0.184  Sum_probs=97.5

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHH
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRL  256 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  256 (1209)
                      ......+.|+|++|+|||++|+.+++....    ..+ .+..+...            ++..   ..........+....
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~~~~----~~~-~i~~~~~~------------~g~~---~~~~~~~~~~~~~~~  120 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEESNF----PFI-KICSPDKM------------IGFS---ETAKCQAMKKIFDDA  120 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHHTC----SEE-EEECGGGC------------TTCC---HHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHhCC----CEE-EEeCHHHh------------cCCc---hHHHHHHHHHHHHHH
Confidence            345578899999999999999999987532    222 22222110            0000   000012223334433


Q ss_pred             hcCCeEEEEEeCCCcccC------------ccccCCCCCCCCccccccccCCcEEEEeccchhhhcc--cCCc-ceEEEc
Q 038494          257 TKEKRVLIILDNIWKKLG------------LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN--DMNS-QKIFLI  321 (1209)
Q Consensus       257 ~~~k~~LlvlDdv~~~~~------------~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~--~~~~-~~~~~l  321 (1209)
                      ...++.+|++||++....            .+.+...+....     .......||.||........  .... ...+.+
T Consensus       121 ~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~-----~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~  195 (272)
T 1d2n_A          121 YKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP-----PQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHV  195 (272)
T ss_dssp             HTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC-----STTCEEEEEEEESCHHHHHHTTCTTTSSEEEEC
T ss_pred             HhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCcc-----CCCCCEEEEEecCChhhcchhhhhcccceEEcC
Confidence            335789999999876411            011111111000     00023446667766533221  1122 467899


Q ss_pred             CCCCH-HHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC------ChhHHHHHHHHHhcCChhHHHHHHHHHhcCCC
Q 038494          322 EVLSK-EEALQFFEKIVGNSAKASAFQPLADEIVGKCGG------LPVALSTVANALKNKKLPVWKDALTQLRNSNP  391 (1209)
Q Consensus       322 ~~L~~-~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g------lPLai~~~~~~l~~~~~~~w~~~~~~l~~~~~  391 (1209)
                      ++++. ++...++.+..  .    -..+....|++.+.|      +.-++.++-..........+..+++.+.....
T Consensus       196 p~l~~r~~i~~i~~~~~--~----~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~~~~~  266 (272)
T 1d2n_A          196 PNIATGEQLLEALELLG--N----FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGA  266 (272)
T ss_dssp             CCEEEHHHHHHHHHHHT--C----SCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHHHTSC
T ss_pred             CCccHHHHHHHHHHhcC--C----CCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHHHcCC
Confidence            99988 66666665532  1    124567789999888      34444333333223355678888877766544

>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=98.16  E-value=1.1e-05  Score=95.83  Aligned_cols=193  Identities=11%  Similarity=0.062  Sum_probs=110.4

Q ss_pred             cccccchhhHHHHHHHHHHHHhC-----------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRN-----------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      +.....++|++..++.+.+|+..                 +..+.+.|+|++|+||||+|+.+++...    + .++.++
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in  109 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQN  109 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEe
Confidence            34467899999999999999874                 1346899999999999999999998873    2 244556


Q ss_pred             cCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHH-HhcCCeEEEEEeCCCcccCc-----cccCCCCCCCCccccc
Q 038494          218 VTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQR-LTKEKRVLIILDNIWKKLGL-----EEIGIPFGDVDEKDRK  291 (1209)
Q Consensus       218 ~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~~k~~LlvlDdv~~~~~~-----~~l~~~~~~~~~~~~~  291 (1209)
                      ++...... +....+............    ....... ...+++.+|++|+++....-     ..+...+         
T Consensus       110 ~s~~~~~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l---------  175 (516)
T 1sxj_A          110 ASDVRSKT-LLNAGVKNALDNMSVVGY----FKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC---------  175 (516)
T ss_dssp             TTSCCCHH-HHHHTGGGGTTBCCSTTT----TTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHH---------
T ss_pred             CCCcchHH-HHHHHHHHHhccccHHHH----HhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHH---------
Confidence            65544433 222222221111000000    0000000 01257789999999875321     1111111         


Q ss_pred             cccCCcEEEEeccchh--hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHHHH
Q 038494          292 QDLRRRTIILTSRSKH--LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALSTVA  368 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~--v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~~~  368 (1209)
                       ...+..||+++....  ...........+.+.+++.++..+.+...+...... -..+....|++.++|. +-++..+.
T Consensus       176 -~~~~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~-i~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          176 -RKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK-LDPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             -HHCSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-CCTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             -HhcCCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHH
Confidence             012334555554322  111122345689999999999999998776421111 1134577899999995 45555553

>1sxj_E Activator 1 40 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=98.11  E-value=6.4e-06  Score=93.47  Aligned_cols=196  Identities=10%  Similarity=0.076  Sum_probs=106.8

Q ss_pred             cccchhhHHHHHHHHHHHH-hCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCE-------------------
Q 038494          157 DFEAFDSRMKLFQDVVEAL-RNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDK-------------------  212 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L-~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~-------------------  212 (1209)
                      ....++|++..++.+.+++ ..+..+.+.|+|+.|+||||+|+.++.......    .+++                   
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~   91 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSP   91 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECS
T ss_pred             CHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeeccc
Confidence            3567899999999999988 655544589999999999999999998642111    0110                   


Q ss_pred             -EEEEEcCCCc-CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCcc
Q 038494          213 -VVMAEVTENP-DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEK  288 (1209)
Q Consensus       213 -~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~  288 (1209)
                       .+.+..+... ......+.+++.+.........    .  -...+. +++-++|+|+++...  ..+.+...+....  
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~----~--~ls~l~-~~~~vlilDE~~~L~~~~~~~L~~~le~~~--  162 (354)
T 1sxj_E           92 YHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQ----D--SKDGLA-HRYKCVIINEANSLTKDAQAALRRTMEKYS--  162 (354)
T ss_dssp             SEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST--
T ss_pred             ceEEecHhhcCCcchHHHHHHHHHHHHhcccccc----c--cccccC-CCCeEEEEeCccccCHHHHHHHHHHHHhhc--
Confidence             1111111100 0000122222222111100000    0  000011 356799999998752  1122221111111  


Q ss_pred             ccccccCCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcc-hHHHHHHHHHhCCChhHHHH
Q 038494          289 DRKQDLRRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAF-QPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~-~~~~~~i~~~~~glPLai~~  366 (1209)
                            .+..+|++|.... +..........+++.+++.++..+.+...+...... -. .+.+..|++.++|.+-.+..
T Consensus       163 ------~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~~l~~i~~~~~G~~r~a~~  235 (354)
T 1sxj_E          163 ------KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ-LETKDILKRIAQASNGNLRVSLL  235 (354)
T ss_dssp             ------TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE-ECCSHHHHHHHHHHTTCHHHHHH
T ss_pred             ------CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC-CCcHHHHHHHHHHcCCCHHHHHH
Confidence                  4667887776643 222122345789999999999999998876421111 11 35677899999998876555


Q ss_pred             HH
Q 038494          367 VA  368 (1209)
Q Consensus       367 ~~  368 (1209)
                      +.
T Consensus       236 ~l  237 (354)
T 1sxj_E          236 ML  237 (354)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.08  E-value=4e-05  Score=86.39  Aligned_cols=186  Identities=13%  Similarity=0.083  Sum_probs=106.2

Q ss_pred             ccchhhHHHHHHHHHHHHhC------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALRN------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ...++|.+..++.+.+++..            ...+.|.|+|++|+|||++|+.+++....     ..+.++++.-... 
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~~-  156 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTSK-  156 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCCS-
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhcc-
Confidence            56789999999988887641            23567899999999999999999887532     2345555421110 


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-------------ccccCCCCCCCCcccccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-------------LEEIGIPFGDVDEKDRKQ  292 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-------------~~~l~~~~~~~~~~~~~~  292 (1209)
                                     ...........+.......++.+|++|+++....             ...+...+....    ..
T Consensus       157 ---------------~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~----~~  217 (357)
T 3d8b_A          157 ---------------WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGAT----TS  217 (357)
T ss_dssp             ---------------STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC--------
T ss_pred             ---------------ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccc----cc
Confidence                           0001123333444444445679999999965411             011110000000    00


Q ss_pred             ccCCcEEEEeccchhhhcc-cC-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC-ChhHHHHHHH
Q 038494          293 DLRRRTIILTSRSKHLLTN-DM-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG-LPVALSTVAN  369 (1209)
Q Consensus       293 ~~~~s~ilvTtR~~~v~~~-~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPLai~~~~~  369 (1209)
                      ...+..||.||........ .. .....+.+...+.++..+++...+...... -..+....|++.+.| .+-.|..+..
T Consensus       218 ~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          218 SEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC-LSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC-CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC-ccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            0023445556654322111 11 223578899999999999998876432111 124567789999988 4556665543

>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=98.07  E-value=1.5e-05  Score=89.09  Aligned_cols=182  Identities=12%  Similarity=0.074  Sum_probs=104.0

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      +.....++|++..++.+.+++..+.. .++.+.|++|+|||++|+.+++....     .++.++.+... ...+ +..+.
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~-----~~~~i~~~~~~-~~~i-~~~~~   94 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA-----DMMFVNGSDCK-IDFV-RGPLT   94 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTE-----EEEEEETTTCC-HHHH-HTHHH
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCC-----CEEEEcccccC-HHHH-HHHHH
Confidence            33466899999999999999986554 56778888999999999999887632     34555654422 2222 22111


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc---CccccCCCCCCCCccccccccCCcEEEEeccchhhh-
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL---GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-  309 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~---~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-  309 (1209)
                      .......                ..+++.+|++||++...   ..+.+...+...        ..+.++|+||...... 
T Consensus        95 ~~~~~~~----------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~--------~~~~~iI~~~n~~~~l~  150 (324)
T 3u61_B           95 NFASAAS----------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAY--------SSNCSIIITANNIDGII  150 (324)
T ss_dssp             HHHHBCC----------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHH--------GGGCEEEEEESSGGGSC
T ss_pred             HHHhhcc----------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhC--------CCCcEEEEEeCCccccC
Confidence            1100000                01367899999998753   222221111111        1456788877664321 


Q ss_pred             cccCCcceEEEcCCCCHHHHHHHHHH-------HhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          310 TNDMNSQKIFLIEVLSKEEALQFFEK-------IVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       310 ~~~~~~~~~~~l~~L~~~e~~~lf~~-------~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      .........+.+++++.+|-.+++..       .+......-+..+....|++.++|.+-.+...
T Consensus       151 ~~l~sR~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~  215 (324)
T 3u61_B          151 KPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGE  215 (324)
T ss_dssp             TTHHHHSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHH
T ss_pred             HHHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHH
Confidence            11112335899999998885443322       22211111111266778888888876644433

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.06  E-value=6.8e-07  Score=101.43  Aligned_cols=160  Identities=14%  Similarity=0.124  Sum_probs=81.2

Q ss_pred             CCccEEEeccCCCccc---ccChhhhcCCCCCcEEEecCccccc--ccccccCCCCCcEEeccCcccCCc--ccc-----
Q 038494          541 PQLKLLLLLANGDSYL---EISHLFFEGTEDLKVLSLSGIHFSS--LSSSLGHLINLQTLCLDWCQLEDV--AAI-----  608 (1209)
Q Consensus       541 ~~L~~L~l~~~~~~~~---~~~~~~~~~l~~Lr~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~~l~~l--~~i-----  608 (1209)
                      ++|++|++++|.....   .+...+....+.|+.|+|++|.++.  +..-...+.+|++|+|++|.+...  ..+     
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            4566777766531111   0111111123567777777776652  122223345667777777766543  222     


Q ss_pred             cCCCCCCEEEccCCCCCc-----cchhccCCCCCCEEeccCCCCCcccC----chhhcCCCCCcEEECCCCCCccccccC
Q 038494          609 GQLKKLEILSFRYSDIKQ-----LPLEIGQLAQLQLLDLSNCSSLVVIA----PNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       609 ~~L~~L~~L~l~~~~~~~-----lp~~i~~L~~L~~L~l~~~~~l~~~~----~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      ...++|++|++++|.+..     ++..+..+++|++|++++| .+....    ...+...++|++|++++|.+...    
T Consensus       152 ~~~~~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          152 HDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHT-GLGDEGLELLAAQLDRNRQLQELNVAYNGAGDT----  226 (372)
T ss_dssp             STTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTS-SCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHH----
T ss_pred             hcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCC-CCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHH----
Confidence            234667777777776642     3444566667777777763 343321    12245556677777766532100    


Q ss_pred             CCccchhhhCCCCCCCEEEeeccCCC
Q 038494          680 GSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       680 ~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                      ........+...++|+.|++++|.+.
T Consensus       227 g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          227 AALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            00111223445566777777666543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.05  E-value=8.7e-05  Score=82.17  Aligned_cols=189  Identities=16%  Similarity=0.159  Sum_probs=108.3

Q ss_pred             ccccchhhHHHHHHHHHHHHh------------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALR------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ....+++|.++.++.|.+.+.            ....+.|.|+|++|+|||++|+.+++.....    ..+.+..+.-.+
T Consensus         9 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~----~~~~i~~~~l~~   84 (322)
T 1xwi_A            9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS----TFFSISSSDLVS   84 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC----EEEEEECCSSCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC----cEEEEEhHHHHh
Confidence            346678888888888877663            1123678999999999999999999876211    223344432110


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcccc-----c---c---
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR-----K---Q---  292 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~-----~---~---  292 (1209)
                                      ..........+.+.......++.+|++|+++....-..-.    ......+     +   .   
T Consensus        85 ----------------~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~----~~~~~~~~~~~ll~~ld~~~  144 (322)
T 1xwi_A           85 ----------------KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN----ESEAARRIKTEFLVQMQGVG  144 (322)
T ss_dssp             ----------------SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSC----CTTHHHHHHHHHHHHHHCSS
T ss_pred             ----------------hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccc----cchHHHHHHHHHHHHHhccc
Confidence                            0011114455555555555678999999998652100000    0000000     0   0   


Q ss_pred             -ccCCcEEEEeccchhhhcccC--CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHHHH
Q 038494          293 -DLRRRTIILTSRSKHLLTNDM--NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALSTVA  368 (1209)
Q Consensus       293 -~~~~s~ilvTtR~~~v~~~~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~~~  368 (1209)
                       ...+..||.||..........  .....+.++..+.++-.+++..++...... -.......|++.+.|. +-.|..+.
T Consensus       145 ~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~-l~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          145 VDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNS-LTEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             SCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBC-CCHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             ccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence             013444555665443221111  233678899999999999999887533221 1245667899999887 44455554


Q ss_pred             H
Q 038494          369 N  369 (1209)
Q Consensus       369 ~  369 (1209)
                      .
T Consensus       224 ~  224 (322)
T 1xwi_A          224 R  224 (322)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.04  E-value=3.4e-05  Score=87.99  Aligned_cols=197  Identities=9%  Similarity=0.059  Sum_probs=103.5

Q ss_pred             ccchhhHHHHHHH---HHHHHhCCCc--eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC----CCcCHHHHH
Q 038494          158 FEAFDSRMKLFQD---VVEALRNDKL--NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT----ENPDVQKIQ  228 (1209)
Q Consensus       158 ~~~~~gR~~~~~~---l~~~L~~~~~--~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s----~~~~~~~l~  228 (1209)
                      ...|+|++..++.   +.+.+.....  +.+.|+|++|+|||++|+.+++.......|   +.+...    ......+..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~---~~~~~~~~~~~~~~~~~~~  119 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF---TAIAGSEIFSLEMSKTEAL  119 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE---EEEEGGGGSCSSSCHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc---ccccchhhhhcccchhHHH
Confidence            6689999888666   4555554443  589999999999999999999988643222   222221    222333333


Q ss_pred             HHHHHHh-CCC----------------------------CCCCC--C--hHHHHHHHHHHH-hcCC----eEEEEEeCCC
Q 038494          229 DKLASDL-DLN----------------------------FDLND--S--KPHRAKQLCQRL-TKEK----RVLIILDNIW  270 (1209)
Q Consensus       229 ~~i~~~l-~~~----------------------------~~~~~--~--~~~~~~~l~~~l-~~~k----~~LlvlDdv~  270 (1209)
                      .+..+.. +..                            .....  .  ............ ..++    +.+|++|+++
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~  199 (368)
T 3uk6_A          120 TQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVH  199 (368)
T ss_dssp             HHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGG
T ss_pred             HHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcc
Confidence            3333321 100                            00000  0  011111122211 1233    3599999998


Q ss_pred             ccc--CccccCCCCCCCCccccccccCCcEEEEecc-c-----------h-hhhcccCCcceEEEcCCCCHHHHHHHHHH
Q 038494          271 KKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSR-S-----------K-HLLTNDMNSQKIFLIEVLSKEEALQFFEK  335 (1209)
Q Consensus       271 ~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR-~-----------~-~v~~~~~~~~~~~~l~~L~~~e~~~lf~~  335 (1209)
                      ...  ..+.+...+...         ....++++|. .           . .+..........+.+++++.++..+++..
T Consensus       200 ~l~~~~~~~L~~~le~~---------~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~  270 (368)
T 3uk6_A          200 MLDIESFSFLNRALESD---------MAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRI  270 (368)
T ss_dssp             GSBHHHHHHHHHHTTCT---------TCCEEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHH
T ss_pred             ccChHHHHHHHHHhhCc---------CCCeeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHH
Confidence            762  222222212111         1122333332 1           1 11111123345689999999999999998


Q ss_pred             HhCCCCCCCcchHHHHHHHHHhC-CChhHHHHH
Q 038494          336 IVGNSAKASAFQPLADEIVGKCG-GLPVALSTV  367 (1209)
Q Consensus       336 ~~~~~~~~~~~~~~~~~i~~~~~-glPLai~~~  367 (1209)
                      .+.... ..-..+....|++.+. |.|-.+..+
T Consensus       271 ~~~~~~-~~~~~~~l~~l~~~~~~G~~r~~~~l  302 (368)
T 3uk6_A          271 RCEEED-VEMSEDAYTVLTRIGLETSLRYAIQL  302 (368)
T ss_dssp             HHHHTT-CCBCHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HHHHcC-CCCCHHHHHHHHHHhcCCCHHHHHHH
Confidence            775222 1223566778888887 777655444

>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=98.01  E-value=5.6e-05  Score=83.96  Aligned_cols=188  Identities=15%  Similarity=0.152  Sum_probs=109.1

Q ss_pred             ccccccchhhHHHHHHHHHHHHh------------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALR------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      |.....+++|.+..++.|.+++.            ....+.|.|+|++|+|||++|+.+++.....     .+.++.+  
T Consensus        13 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~-----~~~v~~~--   85 (322)
T 3eie_A           13 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS--   85 (322)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE-----EEEEEHH--
T ss_pred             CCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC-----EEEEchH--
Confidence            34446788999999999988773            1123578999999999999999999876432     2333331  


Q ss_pred             cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-------------cccCCCCCCCCcc
Q 038494          222 PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-------------EEIGIPFGDVDEK  288 (1209)
Q Consensus       222 ~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-------------~~l~~~~~~~~~~  288 (1209)
                          ++..    ..      ..........+.......++.+|++|+++....-             ..+...+...   
T Consensus        86 ----~l~~----~~------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~---  148 (322)
T 3eie_A           86 ----DLVS----KW------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGV---  148 (322)
T ss_dssp             ----HHHT----TT------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGG---
T ss_pred             ----HHhh----cc------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccc---
Confidence                1111    00      0111344455555555567789999999865210             0110000000   


Q ss_pred             ccccccCCcEEEEeccchhhhcccC--CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHH
Q 038494          289 DRKQDLRRRTIILTSRSKHLLTNDM--NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALS  365 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~v~~~~~--~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~  365 (1209)
                        .....+..||.||..........  .-...+.++..+.++-.+++..++...... ........|++.+.|. +-.|.
T Consensus       149 --~~~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~l~~la~~t~g~sg~di~  225 (322)
T 3eie_A          149 --GNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCV-LTKEDYRTLGAMTEGYSGSDIA  225 (322)
T ss_dssp             --GTSCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC-CCHHHHHHHHHTTTTCCHHHHH
T ss_pred             --cccCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCC-CCHHHHHHHHHHcCCCCHHHHH
Confidence              00113455555666543221111  223578899999999999999988643221 1234567888888874 54555


Q ss_pred             HHH
Q 038494          366 TVA  368 (1209)
Q Consensus       366 ~~~  368 (1209)
                      .+.
T Consensus       226 ~l~  228 (322)
T 3eie_A          226 VVV  228 (322)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.00  E-value=5.2e-05  Score=84.60  Aligned_cols=166  Identities=10%  Similarity=0.139  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcc--------------------cCCEEEEEEcC---C
Q 038494          165 MKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDK--------------------VFDKVVMAEVT---E  220 (1209)
Q Consensus       165 ~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~--------------------~f~~~~wv~~s---~  220 (1209)
                      ++..+.+...+..++. ..+.++|+.|+|||++|+.+++......                    |++ ..++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccCC
Confidence            4556777777776554 5689999999999999999998875321                    122 2233221   1


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCcccccccc
Q 038494          221 NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDL  294 (1209)
Q Consensus       221 ~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~  294 (1209)
                      ...                      .+.++.+.+.+.    .+++-++|+|+++...  ..+.+...+-...        
T Consensus        87 ~~~----------------------i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~--------  136 (334)
T 1a5t_A           87 TLG----------------------VDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPP--------  136 (334)
T ss_dssp             SBC----------------------HHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCC--------
T ss_pred             CCC----------------------HHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCC--------
Confidence            111                      233344444432    2467899999998763  2233322221111        


Q ss_pred             CCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          295 RRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       295 ~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      .+..+|++|.... +..........+.+.+++.++..+.+.+..      .-..+.+..+++.++|.|..+..+
T Consensus       137 ~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~------~~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          137 AETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV------TMSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             TTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC------CCCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             CCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc------CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            4566666666543 333223455789999999999999998875      112456678999999999766544

>1sxj_C Activator 1 40 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=97.99  E-value=2.9e-05  Score=87.18  Aligned_cols=185  Identities=12%  Similarity=0.155  Sum_probs=105.8

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      +.....++|.+..++.+..++..++.+.+.++|++|+||||+|+.+++.......-..+..++.+.......+.. ++..
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~-~i~~   99 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRN-QIKD   99 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHT-HHHH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHH-HHHH
Confidence            334567889888999999988877665589999999999999999998865321101223333333222222211 1111


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhcc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLTN  311 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~~  311 (1209)
                      +......              + .+.+-++|+|+++...  ..+.+...+....        ...++|++|.... +...
T Consensus       100 ~~~~~~~--------------~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~~--------~~~~~il~~n~~~~i~~~  156 (340)
T 1sxj_C          100 FASTRQI--------------F-SKGFKLIILDEADAMTNAAQNALRRVIERYT--------KNTRFCVLANYAHKLTPA  156 (340)
T ss_dssp             HHHBCCS--------------S-SCSCEEEEETTGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCHH
T ss_pred             HHhhccc--------------C-CCCceEEEEeCCCCCCHHHHHHHHHHHhcCC--------CCeEEEEEecCccccchh
Confidence            1000000              0 1236789999997642  2222211111111        3556666665432 2211


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .......+.+.+++.++..+.+...+..... .-..+..+.|++.++|.+--+
T Consensus       157 i~sR~~~~~~~~l~~~~~~~~l~~~~~~~~~-~i~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          157 LLSQCTRFRFQPLPQEAIERRIANVLVHEKL-KLSPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHHTTTC-CBCHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhceeEeccCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHH
Confidence            1234468899999999999988877632111 112456778888888877643

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.98  E-value=3.2e-06  Score=82.74  Aligned_cols=45  Identities=9%  Similarity=0.290  Sum_probs=20.7

Q ss_pred             ccCCCccEEEEecCCCCccccchhhHh---hhccCcEEEEccCCchhh
Q 038494         1064 SFFNNLARLVVDDCTNMSSAIPANLLR---CLNNLRRLEVRNCDSLEE 1108 (1209)
Q Consensus      1064 ~~l~~L~~L~i~~c~~l~~~~~~~~~~---~l~~L~~L~i~~c~~l~~ 1108 (1209)
                      ..+++|++|++++|..+++.....+.+   .+++|++|++++|+++++
T Consensus        82 ~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD  129 (176)
T 3e4g_A           82 EGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTD  129 (176)
T ss_dssp             TTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCH
T ss_pred             cCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCH
Confidence            345555555555555555432222211   123455555555554443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.96  E-value=8.2e-05  Score=83.56  Aligned_cols=183  Identities=16%  Similarity=0.165  Sum_probs=105.1

Q ss_pred             cccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ....|+|++..++.+..++..     .....|.|+|++|+|||++|+.+++.....     .+.++.+......      
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~-----~~~~~~~~~~~~~------   95 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN-----IKTTAAPMIEKSG------   95 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC-----EEEEEGGGCCSHH------
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC-----eEEecchhccchh------
Confidence            466899999999999888862     334578999999999999999998775421     2333333221111      


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCC---------c-cccccccCCcEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVD---------E-KDRKQDLRRRTI  299 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~---------~-~~~~~~~~~s~i  299 (1209)
                                      .........  .+..+|++|+++...  ....+...+....         . .......++..+
T Consensus        96 ----------------~~~~~~~~~--~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           96 ----------------DLAAILTNL--SEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             ----------------HHHHHHHTC--CTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             ----------------HHHHHHHhc--cCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                            111111111  355788899988652  1111110000000         0 000000023456


Q ss_pred             EEeccchhhhc-ccC-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          300 ILTSRSKHLLT-NDM-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       300 lvTtR~~~v~~-~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      |.+|....... ... .....+.+.+++.++...++.+.+.... ..-..+..+.|++.+.|.|-.+..+..
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~~l~  228 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN-KTCEEKAALEIAKRSRSTPRIALRLLK  228 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence            66665533211 011 2236899999999999999988765221 122356777899999999966554443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.93  E-value=0.00013  Score=83.40  Aligned_cols=187  Identities=15%  Similarity=0.141  Sum_probs=105.4

Q ss_pred             ccccchhhHHHHHHHHHHHHhC------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALRN------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      .....++|++..++.+.+++..            ...+.|.|+|.+|+|||++|+.+++....     ..+.++++.-..
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~~  186 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLTS  186 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC--
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhhc
Confidence            3467899999999999988731            22467899999999999999999877532     233444433211


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-------------cccCCCCCCCCcccc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-------------EEIGIPFGDVDEKDR  290 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-------------~~l~~~~~~~~~~~~  290 (1209)
                      .  .       .+      . .......+........+.+|++|+++....-             ..+...+....    
T Consensus       187 ~--~-------~g------~-~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~----  246 (389)
T 3vfd_A          187 K--Y-------VG------E-GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQ----  246 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             c--c-------cc------h-HHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhccc----
Confidence            0  0       00      0 1233444444444456689999999765110             00000000000    


Q ss_pred             ccccCCcEEEEeccchhhhcc-cC-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-HHHHH
Q 038494          291 KQDLRRRTIILTSRSKHLLTN-DM-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-ALSTV  367 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~v~~~-~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-ai~~~  367 (1209)
                      ........||.||........ .. .....+.+...+.++..+++...+..... .-..+....|++.+.|..- +|..+
T Consensus       247 ~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~-~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          247 SAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS-PLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             -----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC-CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             ccCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            000123445556654322211 11 22357889999999999999888753222 1224567789999988544 55554


Q ss_pred             H
Q 038494          368 A  368 (1209)
Q Consensus       368 ~  368 (1209)
                      .
T Consensus       326 ~  326 (389)
T 3vfd_A          326 A  326 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.92  E-value=0.0003  Score=77.26  Aligned_cols=190  Identities=10%  Similarity=0.086  Sum_probs=105.5

Q ss_pred             cccchhhHHHHHHHHHHHHhC------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          157 DFEAFDSRMKLFQDVVEALRN------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ....++|.+..++.+.+++..            ...+.+.|+|++|+|||++|+.+++....     ..+.++.+.-.. 
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~~i~~~~l~~-   92 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFLNISAASLTS-   92 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEEEEESTTTSS-
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEeeHHHHhh-
Confidence            356789999999998887642            23468899999999999999999987642     223444433211 


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCC-CCCCCCccccc---cc------c
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGI-PFGDVDEKDRK---QD------L  294 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~-~~~~~~~~~~~---~~------~  294 (1209)
                                     ............+.......++.+|++|+++....-..-.. ..........+   .+      .
T Consensus        93 ---------------~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           93 ---------------KYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             ---------------SSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             ---------------cccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence                           00111133344444444445778999999976521100000 00000000000   00      0


Q ss_pred             CCcEEEEeccchhhhccc-C-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-HHHHHH
Q 038494          295 RRRTIILTSRSKHLLTND-M-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-ALSTVA  368 (1209)
Q Consensus       295 ~~s~ilvTtR~~~v~~~~-~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-ai~~~~  368 (1209)
                      .+..||.||......... . .....+.+...+.++...++...+..... .-..+....|++.+.|.+- ++..+.
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGS-PLDTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSC-CSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            234566666654321110 0 12256778888888888888877643211 1124567789999988875 554443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.92  E-value=0.00023  Score=79.27  Aligned_cols=181  Identities=11%  Similarity=0.097  Sum_probs=105.2

Q ss_pred             cccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          155 AKDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ...+.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....     .+.+..+.-
T Consensus       144 ~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l  218 (405)
T 4b4t_J          144 DSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK-----FIRVSGAEL  218 (405)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE-----EEEEEGGGG
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC-----ceEEEhHHh
Confidence            3346677788877777776654    1         224568899999999999999999987643     244444332


Q ss_pred             cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc-------cc---
Q 038494          222 PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD-------RK---  291 (1209)
Q Consensus       222 ~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~-------~~---  291 (1209)
                      .+                ....+.+..++.+........+++|++|+++....-..   .-..++...       .+   
T Consensus       219 ~s----------------k~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~---~~~~~~~~~~~~~l~~lL~~l  279 (405)
T 4b4t_J          219 VQ----------------KYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRV---EGSGGGDSEVQRTMLELLNQL  279 (405)
T ss_dssp             SC----------------SSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCS---CSSSGGGGHHHHHHHHHHHHH
T ss_pred             hc----------------cccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCC---CCCCCCcHHHHHHHHHHHHhh
Confidence            10                00111244555566555556889999999986521000   000000000       00   


Q ss_pred             ---cccCCcEEEEeccchhhhccc----CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          292 ---QDLRRRTIILTSRSKHLLTND----MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       292 ---~~~~~s~ilvTtR~~~v~~~~----~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                         ....+-.||.||...+....+    ..-...+.++.-+.++-.++|+.+.......++.  ...+|++.+.|.-
T Consensus       280 Dg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dv--dl~~lA~~t~G~S  354 (405)
T 4b4t_J          280 DGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI--NLRKVAEKMNGCS  354 (405)
T ss_dssp             HTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSC--CHHHHHHHCCSCC
T ss_pred             hccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccC--CHHHHHHHCCCCC
Confidence               011344566677665433211    1345689999999999999998887633222211  1347778887754

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.89  E-value=4.8e-05  Score=88.95  Aligned_cols=150  Identities=17%  Similarity=0.194  Sum_probs=87.9

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----C-EEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----D-KVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~-~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...++||+.+++.+.+.+......-+.|+|.+|+|||++|+.+++........    + .++.++++            .
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~------------~  246 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG------------T  246 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------------
T ss_pred             CCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC------------c
Confidence            45689999999999999986666677899999999999999999987432111    1 12333332            0


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchh-----
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-----  307 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-----  307 (1209)
                      ...+    ..   ......+...+...++.+|++|  ...+....+...+..          ...++|.+|....     
T Consensus       247 ~~~g----~~---e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~~----------g~v~vI~at~~~e~~~~~  307 (468)
T 3pxg_A          247 KYRG----EF---EDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLAR----------GELQCIGATTLDEYRKYI  307 (468)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTTS----------SSCEEEEECCTTTTHHHH
T ss_pred             cccc----hH---HHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhcC----------CCEEEEecCCHHHHHHHh
Confidence            0000    00   1233445555555567899999  222222223333221          2455666655443     


Q ss_pred             -hhcccCCcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          308 -LLTNDMNSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       308 -v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                       ...........+.+++.+.++..+++.....
T Consensus       308 ~~~~al~~Rf~~i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          308 EKDAALERRFQPIQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             TTCSHHHHSEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             hcCHHHHHhCccceeCCCCHHHHHHHHHHHHH
Confidence             1111112345799999999999999987654

>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=97.89  E-value=2e-05  Score=91.29  Aligned_cols=186  Identities=14%  Similarity=0.187  Sum_probs=106.3

Q ss_pred             ccchh-hH--HHHHHHHHHHHhCCC-ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          158 FEAFD-SR--MKLFQDVVEALRNDK-LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       158 ~~~~~-gR--~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ...|+ |.  ......+..+..... ...+.|+|++|+||||||+.+++.......-..+++++...      +...+..
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~------~~~~~~~  177 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK------FLNDLVD  177 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH------HHHHHHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH------HHHHHHH
Confidence            45666 42  333444555544433 56889999999999999999998875431112455665432      3334444


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----ccccCCCCCCCCccccccccCCcEEEEeccchhhh
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL  309 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~  309 (1209)
                      .+...         ....+...+. .++-+|++||++....    .+.+...+...       ...|..||+||......
T Consensus       178 ~~~~~---------~~~~~~~~~~-~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l-------~~~~~~iIitt~~~~~~  240 (440)
T 2z4s_A          178 SMKEG---------KLNEFREKYR-KKVDILLIDDVQFLIGKTGVQTELFHTFNEL-------HDSGKQIVICSDREPQK  240 (440)
T ss_dssp             HHHTT---------CHHHHHHHHT-TTCSEEEEECGGGGSSCHHHHHHHHHHHHHH-------HTTTCEEEEEESSCGGG
T ss_pred             HHHcc---------cHHHHHHHhc-CCCCEEEEeCcccccCChHHHHHHHHHHHHH-------HHCCCeEEEEECCCHHH
Confidence            33211         0112333332 2567999999976532    11121111000       01567888888763211


Q ss_pred             -----ccc---CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          310 -----TND---MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       310 -----~~~---~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                           ...   +.....+.+++++.++..+++.+.+..... .-..+....|++.++|.+-.+.-+
T Consensus       241 l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~-~i~~e~l~~la~~~~gn~R~l~~~  305 (440)
T 2z4s_A          241 LSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHG-ELPEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_dssp             CSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTC-CCCTTHHHHHHHHCCSCHHHHHHH
T ss_pred             HHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHH
Confidence                 000   112257889999999999999887641110 111345778999999988765544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.88  E-value=1.5e-05  Score=80.83  Aligned_cols=49  Identities=22%  Similarity=0.307  Sum_probs=43.3

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...++||+.+++.+.+++.....+.+.|+|++|+|||++|+.+++....
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            5578999999999999998766778899999999999999999988743

>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=97.88  E-value=0.00011  Score=82.51  Aligned_cols=185  Identities=16%  Similarity=0.159  Sum_probs=105.8

Q ss_pred             cccchhhHHHHHHHHHHHHhC------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          157 DFEAFDSRMKLFQDVVEALRN------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ....++|.+..++.|.+++..            ...+-|.|+|++|+|||++|+.+++.....     .+.+..+     
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~-----~~~v~~~-----  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS-----  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE-----EEEEEHH-----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-----EEEeeHH-----
Confidence            356788988888888887631            123458899999999999999999987432     2333322     


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-------------cccCCCCCCCCccccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-------------EEIGIPFGDVDEKDRK  291 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-------------~~l~~~~~~~~~~~~~  291 (1209)
                       ++..    ..   .   .........+.......++.+|++|+++....-             ..+...+....     
T Consensus       119 -~l~~----~~---~---g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~-----  182 (355)
T 2qp9_X          119 -DLVS----KW---M---GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG-----  182 (355)
T ss_dssp             -HHHS----CC---------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC-----
T ss_pred             -HHhh----hh---c---chHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccc-----
Confidence             1111    00   0   011344455555554457899999999865210             11100000000     


Q ss_pred             cccCCcEEEEeccchhhhccc--CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHHHH
Q 038494          292 QDLRRRTIILTSRSKHLLTND--MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALSTVA  368 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~~~  368 (1209)
                      ....+..||.||.........  ......+.++..+.++-.+++..++...... -.......|++.+.|. +-.|..+.
T Consensus       183 ~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~-~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          183 NDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSV-LTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             ---CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBC-CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             ccCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCC-CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            001344555566544321100  1233678899999999999999887633211 1244567899999884 54555554

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.87  E-value=0.00017  Score=79.23  Aligned_cols=179  Identities=11%  Similarity=0.144  Sum_probs=102.1

Q ss_pred             ccccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ....+++|.+..++.+.+++..             ...+.|.|+|++|+|||++|+.+++....     ..+.++     
T Consensus        12 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~-----~~i~v~-----   81 (301)
T 3cf0_A           12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISIK-----   81 (301)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----EEEEEC-----
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC-----CEEEEE-----
Confidence            3456788888888888777642             33467899999999999999999987642     122222     


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---c-------------cccCCCCCCCC
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---L-------------EEIGIPFGDVD  286 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---~-------------~~l~~~~~~~~  286 (1209)
                       ..++....   ++..       ......+........+.+|++|+++....   .             ..+...+..  
T Consensus        82 -~~~l~~~~---~g~~-------~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~--  148 (301)
T 3cf0_A           82 -GPELLTMW---FGES-------EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDG--  148 (301)
T ss_dssp             -HHHHHHHH---HTTC-------TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHS--
T ss_pred             -hHHHHhhh---cCch-------HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhc--
Confidence             22332222   2211       12334444444445779999999985410   0             001000000  


Q ss_pred             ccccccccCCcEEEEeccchhhhccc-C---CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          287 EKDRKQDLRRRTIILTSRSKHLLTND-M---NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       287 ~~~~~~~~~~s~ilvTtR~~~v~~~~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                          .....+..||.||......... .   .-...+.++..+.++-.+++...........+.  ....+++.+.|.|-
T Consensus       149 ----~~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~--~~~~la~~~~g~sg  222 (301)
T 3cf0_A          149 ----MSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSG  222 (301)
T ss_dssp             ----SCTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHTCSSCCH
T ss_pred             ----ccCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc--hHHHHHHHcCCCCH
Confidence                0011355677777655322111 1   233678999999999999998887532211111  12356667777765


Q ss_pred             H
Q 038494          363 A  363 (1209)
Q Consensus       363 a  363 (1209)
                      +
T Consensus       223 ~  223 (301)
T 3cf0_A          223 A  223 (301)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.87  E-value=4.7e-05  Score=84.35  Aligned_cols=154  Identities=14%  Similarity=0.119  Sum_probs=84.9

Q ss_pred             chhhHHHHHHHHHHHHh---------------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          160 AFDSRMKLFQDVVEALR---------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~---------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      .++|.+..++.+.+++.               ......+.|+|++|+|||++|+.+++...........-++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            47788777777776543               233457899999999999999999988754332221122333211   


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc-----------CccccCCCCCCCCccccccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL-----------GLEEIGIPFGDVDEKDRKQD  293 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~-----------~~~~l~~~~~~~~~~~~~~~  293 (1209)
                               .+...  ...........+....   +.-+|++|+++...           ....+...+...        
T Consensus       109 ---------~l~~~--~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~--------  166 (309)
T 3syl_A          109 ---------DLVGQ--YIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENN--------  166 (309)
T ss_dssp             ---------GTCCS--STTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHC--------
T ss_pred             ---------Hhhhh--cccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcC--------
Confidence                     00000  0011122223333322   33599999998541           111111111111        


Q ss_pred             cCCcEEEEeccchhhh------cccC-CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          294 LRRRTIILTSRSKHLL------TNDM-NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~------~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      ..+..+|.||......      .... .....+.+++++.++-.+++...+.
T Consensus       167 ~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          167 RDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             TTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            1456777777543210      0001 1236899999999999999988764

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.85  E-value=0.00033  Score=80.41  Aligned_cols=110  Identities=10%  Similarity=0.156  Sum_probs=62.2

Q ss_pred             cccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccc-h
Q 038494          554 SYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLP-L  629 (1209)
Q Consensus       554 ~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp-~  629 (1209)
                      .+..+....|.++.+|+.+.+.. .++.+++ +|.++.+|+.+++..+ ++.+  ..+.++.+|+.+.+..+ +..+. .
T Consensus        58 ~VtsIg~~AF~~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~  134 (394)
T 4fs7_A           58 DVVSIGYAAFQGCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVE  134 (394)
T ss_dssp             EEEEECTTTTTTCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTT
T ss_pred             eEeEhHHHHhhCCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecce
Confidence            45667777788888888888864 3666654 5777788888877644 5555  45666666766555432 33332 2


Q ss_pred             hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          630 EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       630 ~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      .+.++..+.....   .....+....+.++.+|+.+.+..
T Consensus       135 aF~~~~~~~~~~~---~~~~~i~~~aF~~c~~L~~i~l~~  171 (394)
T 4fs7_A          135 AFKGCDFKEITIP---EGVTVIGDEAFATCESLEYVSLPD  171 (394)
T ss_dssp             TTTTCCCSEEECC---TTCCEECTTTTTTCTTCCEEECCT
T ss_pred             eeecccccccccC---ccccccchhhhcccCCCcEEecCC
Confidence            2333332222222   122333344466666666666643

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.82  E-value=0.00053  Score=76.55  Aligned_cols=183  Identities=14%  Similarity=0.128  Sum_probs=103.8

Q ss_pred             ccccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          154 QAKDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       154 ~~~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      |...+.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....  |   +.+..++
T Consensus       177 p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~--f---i~v~~s~  251 (437)
T 4b4t_I          177 PTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT--F---LRIVGSE  251 (437)
T ss_dssp             CCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE--E---EEEESGG
T ss_pred             CCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC--E---EEEEHHH
Confidence            33446677788877777776654    1         234678999999999999999999988643  2   3343332


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc-----cc----
Q 038494          221 NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD-----RK----  291 (1209)
Q Consensus       221 ~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~-----~~----  291 (1209)
                      -.+                ....+.+..++.+........+++|++|+++....-..-...-. .....     .+    
T Consensus       252 l~s----------------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~-~~~~~~~l~~LL~~lD  314 (437)
T 4b4t_I          252 LIQ----------------KYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGG-EREIQRTMLELLNQLD  314 (437)
T ss_dssp             GCC----------------SSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSS-CCHHHHHHHHHHHHHH
T ss_pred             hhh----------------ccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCc-cHHHHHHHHHHHHHhh
Confidence            110                01111244555566555556789999999986521110000000 00000     00    


Q ss_pred             --cccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          292 --QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       292 --~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                        ....+..||.||-..+....+.    .-...+.++.-+.++-.++|..+.......++.  ....|++.+.|.
T Consensus       315 g~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv--dl~~LA~~T~Gf  387 (437)
T 4b4t_I          315 GFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV--NLETLVTTKDDL  387 (437)
T ss_dssp             HCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC--CHHHHHHHCCSC
T ss_pred             CcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCC
Confidence              0113445666776655443222    233568888888888899998887633222211  134677777765

>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=97.81  E-value=0.00023  Score=82.52  Aligned_cols=187  Identities=17%  Similarity=0.172  Sum_probs=105.4

Q ss_pred             ccccchhhHHHHHHHHHHHHh------------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALR------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      .....++|.+..++.|.+++.            ....+.|.|+|++|+|||++|+.+++.... .     .++.++... 
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~-~-----~~~~v~~~~-  203 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN-S-----TFFSISSSD-  203 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS-S-----EEEEECCC--
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC-C-----CEEEEeHHH-
Confidence            346678899988888888763            123467899999999999999999987621 1     123333221 


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-------------ccccCCCCCCCCcccc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-------------LEEIGIPFGDVDEKDR  290 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-------------~~~l~~~~~~~~~~~~  290 (1209)
                         +...   ..+.    .   ...+..+.......++.+|++|+++....             ...+...+....    
T Consensus       204 ---l~~~---~~g~----~---~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~----  266 (444)
T 2zan_A          204 ---LVSK---WLGE----S---EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG----  266 (444)
T ss_dssp             ------------------C---CCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSS----
T ss_pred             ---HHhh---hcch----H---HHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcc----
Confidence               1110   0110    0   11233344444445779999999986511             011111111000    


Q ss_pred             ccccCCcEEEEeccchhhhccc-C-CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHHH
Q 038494          291 KQDLRRRTIILTSRSKHLLTND-M-NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALSTV  367 (1209)
Q Consensus       291 ~~~~~~s~ilvTtR~~~v~~~~-~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~~  367 (1209)
                       ....+..||.||......... . .....+.++..+.++...+|..++...... -.......|++.+.|. +-.|..+
T Consensus       267 -~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~-l~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          267 -VDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS-LTEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             -CCCSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEE-CCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             -cCCCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHcCCCCHHHHHHH
Confidence             001455666677554322111 1 223578888889999999998887533211 1235567899999884 5455555


Q ss_pred             H
Q 038494          368 A  368 (1209)
Q Consensus       368 ~  368 (1209)
                      .
T Consensus       345 ~  345 (444)
T 2zan_A          345 V  345 (444)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.80  E-value=0.0003  Score=80.43  Aligned_cols=142  Identities=14%  Similarity=0.197  Sum_probs=69.6

Q ss_pred             CeEEEEccCCCCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEec
Q 038494          520 GAIAISIPYGDIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCL  597 (1209)
Q Consensus       520 ~~r~l~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l  597 (1209)
                      +++.+.+..+.+..++... .+.+|+.+.+..   ....+....|.++.+|+.+++..+ ++.++. +|.+ .+|+.+.+
T Consensus       181 ~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~---~l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~l  255 (401)
T 4fdw_A          181 NLKKADLSKTKITKLPASTFVYAGIEEVLLPV---TLKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVKL  255 (401)
T ss_dssp             TCCEEECTTSCCSEECTTTTTTCCCSEEECCT---TCCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEEE
T ss_pred             cCCeeecCCCcceEechhhEeecccCEEEeCC---chheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEEEe
Confidence            3444444444444444321 344555555432   234445555555555555555542 343333 3333 45555555


Q ss_pred             cCcccCCc--ccccCCCCCCEEEccCCCCC-----ccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          598 DWCQLEDV--AAIGQLKKLEILSFRYSDIK-----QLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       598 ~~~~l~~l--~~i~~L~~L~~L~l~~~~~~-----~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      . +.++.+  ..|.++.+|+.+++.++.+.     .++ ..+.++.+|+.+.+..  +++.++...+.++.+|+.+.+..
T Consensus       256 p-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~--~i~~I~~~aF~~c~~L~~l~lp~  332 (401)
T 4fdw_A          256 P-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE--SIRILGQGLLGGNRKVTQLTIPA  332 (401)
T ss_dssp             E-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT--TCCEECTTTTTTCCSCCEEEECT
T ss_pred             C-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC--ceEEEhhhhhcCCCCccEEEECc
Confidence            2 234444  45556666666666554332     232 2355566666666553  35555555555666666665543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.80  E-value=0.00019  Score=81.40  Aligned_cols=177  Identities=11%  Similarity=0.094  Sum_probs=102.6

Q ss_pred             cccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          155 AKDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ...+.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....     .+.+..+.-
T Consensus       177 ~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l  251 (434)
T 4b4t_M          177 TETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT-----FLKLAAPQL  251 (434)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGG
T ss_pred             CCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC-----EEEEehhhh
Confidence            3446778888888888877643    1         234678999999999999999999987642     344444321


Q ss_pred             cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCcc----------------ccCCCCCCC
Q 038494          222 PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE----------------EIGIPFGDV  285 (1209)
Q Consensus       222 ~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~----------------~l~~~~~~~  285 (1209)
                      .+                .........++.+........+++|++|+++....-.                .+...+...
T Consensus       252 ~~----------------~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~  315 (434)
T 4b4t_M          252 VQ----------------MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF  315 (434)
T ss_dssp             CS----------------SCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTS
T ss_pred             hh----------------cccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhcc
Confidence            10                0011113444455554444578999999997541100                000000000


Q ss_pred             CccccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          286 DEKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       286 ~~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                            ....+-.||.||...+....++    .-...+.++.-+.++-.++|+.+.......++.  -..+|++.+.|.
T Consensus       316 ------~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dv--dl~~lA~~t~G~  386 (434)
T 4b4t_M          316 ------SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDI--NWQELARSTDEF  386 (434)
T ss_dssp             ------CSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCC--CHHHHHHHCSSC
T ss_pred             ------CCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCC
Confidence                  0113445666776665443222    234678899889888889988776422211111  134677888775

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.79  E-value=0.00053  Score=77.74  Aligned_cols=182  Identities=15%  Similarity=0.189  Sum_probs=104.3

Q ss_pred             ccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ..+.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....     .+.+..+.-.
T Consensus       178 v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~-----~~~v~~s~l~  252 (437)
T 4b4t_L          178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN-----FIFSPASGIV  252 (437)
T ss_dssp             SCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGTC
T ss_pred             CChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehhhhc
Confidence            346677788887777777654    1         234678999999999999999999987643     3444444321


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcc-----ccc------
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEK-----DRK------  291 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~-----~~~------  291 (1209)
                      +                .........++.+........+++|++|+++....-..-.... .....     ..+      
T Consensus       253 s----------------k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~-~~~~~~~~l~~lL~~lDg~  315 (437)
T 4b4t_L          253 D----------------KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTS-ADREIQRTLMELLTQMDGF  315 (437)
T ss_dssp             C----------------SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCS-STTHHHHHHHHHHHHHHSS
T ss_pred             c----------------ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCC-cchHHHHHHHHHHHHhhcc
Confidence            1                0011113444555555555688999999998642100000000 00000     000      


Q ss_pred             cccCCcEEEEeccchhhhcccC-C---cceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          292 QDLRRRTIILTSRSKHLLTNDM-N---SQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~~-~---~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ....+..||.||...+....+. .   -...+.++.-+.++-.++|+.+........+.  ....|++.+.|.-
T Consensus       316 ~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~--dl~~lA~~t~G~s  387 (437)
T 4b4t_L          316 DNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF--DFEAAVKMSDGFN  387 (437)
T ss_dssp             SCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC--CHHHHHHTCCSCC
T ss_pred             cCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc--CHHHHHHhCCCCC
Confidence            0113456777776655443222 1   34578888888888889998777532222211  1346777777753

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.78  E-value=1.1e-05  Score=78.86  Aligned_cols=94  Identities=14%  Similarity=0.191  Sum_probs=69.2

Q ss_pred             cCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccc-cccCCccEEEEecCCCccccccHHH
Q 038494          789 PRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLRED-QFFSNLKIIEVESCDKLKHLFSFSI  867 (1209)
Q Consensus       789 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~-~~l~~L~~L~l~~c~~l~~l~~~~~  867 (1209)
                      .+|++|++++|. +..    .+......+++|+.|+|++|..+++.....+... ...++|+.|+|++|+++++... ..
T Consensus        61 ~~L~~LDLs~~~-Itd----~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl-~~  134 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMS----IGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI-IA  134 (176)
T ss_dssp             CCEEEEEEESCC-CCG----GGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH-HH
T ss_pred             ceEeEEeCcCCC-ccH----HHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH-HH
Confidence            468999999987 321    2233445789999999999998888765544331 0246899999999999887543 34


Q ss_pred             HhhcccccEEEEecccccccc
Q 038494          868 ARNLLRLQKVKVASCNKLEMT  888 (1209)
Q Consensus       868 ~~~l~~L~~L~l~~c~~l~~~  888 (1209)
                      +.++++|++|++++|+.+++.
T Consensus       135 L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          135 LHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             GGGCTTCCEEEEESCTTCCCH
T ss_pred             HhcCCCCCEEECCCCCCCCch
Confidence            567899999999999888764

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.77  E-value=9.2e-05  Score=82.49  Aligned_cols=168  Identities=17%  Similarity=0.167  Sum_probs=94.5

Q ss_pred             HHHHHHHHHhCC--CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCC
Q 038494          167 LFQDVVEALRND--KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDS  244 (1209)
Q Consensus       167 ~~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~  244 (1209)
                      ....+..++..+  ....+.|+|++|+||||+|+.+++.....  -..++++++.      ++...+...+...      
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~------~~~~~~~~~~~~~------   87 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSAD------DFAQAMVEHLKKG------   87 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHH------HHHHHHHHHHHHT------
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHH------HHHHHHHHHHHcC------
Confidence            344455555543  34678999999999999999999887543  1234555543      2333333332110      


Q ss_pred             hHHHHHHHHHHHhcCCeEEEEEeCCCcccC---c-cccCCCCCCCCccccccccCCcEEEEeccchhhh-----ccc---
Q 038494          245 KPHRAKQLCQRLTKEKRVLIILDNIWKKLG---L-EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLL-----TND---  312 (1209)
Q Consensus       245 ~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---~-~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~-----~~~---  312 (1209)
                         ........+.  +..+|++||++....   + +.+...+..       ....+..+|+||......     ...   
T Consensus        88 ---~~~~~~~~~~--~~~vL~iDEi~~l~~~~~~~~~l~~~l~~-------~~~~~~~iii~~~~~~~~l~~l~~~L~sR  155 (324)
T 1l8q_A           88 ---TINEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNT-------LYLLEKQIILASDRHPQKLDGVSDRLVSR  155 (324)
T ss_dssp             ---CHHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHH-------HHHTTCEEEEEESSCGGGCTTSCHHHHHH
T ss_pred             ---cHHHHHHHhc--CCCEEEEcCcccccCChHHHHHHHHHHHH-------HHHCCCeEEEEecCChHHHHHhhhHhhhc
Confidence               1112233333  357999999987532   1 112111100       001466788887643211     000   


Q ss_pred             CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          313 MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       313 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                      ......+.+++ +.++..+++...+..... .-..+....|++.+ |..-.
T Consensus       156 ~~~~~~i~l~~-~~~e~~~il~~~~~~~~~-~l~~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          156 FEGGILVEIEL-DNKTRFKIIKEKLKEFNL-ELRKEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHTSEEEECCC-CHHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHC-SSHHH
T ss_pred             ccCceEEEeCC-CHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhC-CCHHH
Confidence            11225789999 999999999888752111 12246677888888 76543

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.77  E-value=8.1e-05  Score=94.27  Aligned_cols=160  Identities=14%  Similarity=0.180  Sum_probs=90.3

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhccc-----CCEEEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV-----FDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~-----f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ....++||++++..+++.+.......+.++|.+|+|||++|+.+++.......     -..+++++++.-..        
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~--------  239 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA--------  239 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             CCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc--------
Confidence            35678999999999999998766667889999999999999999998743211     12344554422110        


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhc-CCeEEEEEeCCCcccC-------ccccCCCCCCCCccccccccCCcEEEEec
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTK-EKRVLIILDNIWKKLG-------LEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlvlDdv~~~~~-------~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                          +  .............+...+.. +++.+|++|+++....       ++.. ..+..      .....+..+|.+|
T Consensus       240 ----g--~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~-~~L~~------~l~~~~i~~I~at  306 (854)
T 1qvr_A          240 ----G--AKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAG-NMLKP------ALARGELRLIGAT  306 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC--------------------HH------HHHTTCCCEEEEE
T ss_pred             ----c--CccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHH-HHHHH------HHhCCCeEEEEec
Confidence                0  00001123445555565553 3679999999986521       1110 00000      0011234456555


Q ss_pred             cchhh-----hcccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          304 RSKHL-----LTNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       304 R~~~v-----~~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      .....     ..........+.+++++.++..+++....
T Consensus       307 ~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          307 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             CchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence            43321     11112334568999999999999997544

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.74  E-value=0.00064  Score=76.71  Aligned_cols=178  Identities=12%  Similarity=0.108  Sum_probs=102.6

Q ss_pred             ccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      +.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....     .+.+..+.-.+ 
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~-----fi~vs~s~L~s-  281 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT-----FIRVIGSELVQ-  281 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC-----eEEEEhHHhhc-
Confidence            4567788888877776543    1         235678899999999999999999987643     24444432110 


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc-------cc------
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD-------RK------  291 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~-------~~------  291 (1209)
                                     ......+..++.+........+++|++|+++....-..-   -..+....       .+      
T Consensus       282 ---------------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~---~~~~~~~~~~~~l~~lL~~lDg~  343 (467)
T 4b4t_H          282 ---------------KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFD---DGAGGDNEVQRTMLELITQLDGF  343 (467)
T ss_dssp             ---------------CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSS---SSCGGGGHHHHHHHHHHHHHHSS
T ss_pred             ---------------ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccC---cCCCccHHHHHHHHHHHHHhhcc
Confidence                           001111344555555555568899999999865210000   00000000       00      


Q ss_pred             cccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          292 QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ....+..||.||........++    .-...+.++..+.++-.++|+.+........+.  ....|++.+.|.-
T Consensus       344 ~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dv--dl~~LA~~T~GfS  415 (467)
T 4b4t_H          344 DPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGI--RWELISRLCPNST  415 (467)
T ss_dssp             CCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHHCCSCC
T ss_pred             CCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCC--CHHHHHHHCCCCC
Confidence            0113344566775554332111    345688899889999999998887633222211  1346778887753

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.67  E-value=0.00058  Score=77.35  Aligned_cols=181  Identities=16%  Similarity=0.161  Sum_probs=98.7

Q ss_pred             ccccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ..+.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||.+|+++++.....     .+.+..++-.
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~-----~~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE-----EEEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eEEEecchhh
Confidence            346677888888888777654    1         234568999999999999999999987642     3445544321


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcccc-----c------
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR-----K------  291 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~-----~------  291 (1209)
                      +                .........++.+........+++|++|+++....-..-.. ........+     +      
T Consensus       244 ~----------------~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~-~~~~~~~~r~l~~lL~~ldg~  306 (428)
T 4b4t_K          244 H----------------KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQ-TGSDREVQRILIELLTQMDGF  306 (428)
T ss_dssp             C----------------SSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSC-SCCCCHHHHHHHHHHHHHHHS
T ss_pred             c----------------cccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCC-CCCChHHHHHHHHHHHHhhCC
Confidence            1                00111234455555555556789999999975421100000 000000000     0      


Q ss_pred             cccCCcEEEEeccchhhhcccC----CcceEEEcCCCC-HHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC
Q 038494          292 QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLS-KEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL  360 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~-~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl  360 (1209)
                      ....+-.||.||...+....+.    .-...+.++.++ .++-..+|..+.......++.  ....|++.+.|.
T Consensus       307 ~~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~--dl~~lA~~t~G~  378 (428)
T 4b4t_K          307 DQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA--DLDSLIIRNDSL  378 (428)
T ss_dssp             CSSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC--CHHHHHHHTTTC
T ss_pred             CCCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHHCCCC
Confidence            1123445666776554322111    233567887664 555566776665432211111  134677777775

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.62  E-value=4.9e-05  Score=85.23  Aligned_cols=136  Identities=16%  Similarity=0.194  Sum_probs=66.8

Q ss_pred             hhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc--cccc--CCCCCCEEEccCC--C------CCccc
Q 038494          561 LFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIG--QLKKLEILSFRYS--D------IKQLP  628 (1209)
Q Consensus       561 ~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~--~L~~L~~L~l~~~--~------~~~lp  628 (1209)
                      .++..+++|+.|+++++.-..++. + .+.+|+.|++..|.+..-  ..++  ++++|++|+|+.+  .      +..+.
T Consensus       166 ~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~  243 (362)
T 2ra8_A          166 PVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFR  243 (362)
T ss_dssp             HHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTG
T ss_pred             HHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHH
Confidence            344566677777776653223333 3 266777777776665332  3332  5677777776421  0      11121


Q ss_pred             hhc--cCCCCCCEEeccCCCCCcccCchhh--cCCCCCcEEECCCCCCccccccCCC-ccchhhhCCCCCCCEEEeeccC
Q 038494          629 LEI--GQLAQLQLLDLSNCSSLVVIAPNVI--SKFSRLEELYMGDSFPQWDKVEGGS-NASLAELKGLSKLTTLEIQVQD  703 (1209)
Q Consensus       629 ~~i--~~L~~L~~L~l~~~~~l~~~~~~~l--~~L~~L~~L~l~~~~~~~~~~~~~~-~~~l~~L~~l~~L~~L~l~~~~  703 (1209)
                      ..+  ..+++|++|++.+|......+....  ..+++|++|+++.|..     .... ......+..+++|+.|+++.+.
T Consensus       244 ~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L-----~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          244 PLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVL-----TDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             GGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCC-----BHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             HHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCC-----ChHHHHHHHhhcccCCcceEEECCCCc
Confidence            112  2466777777766432211111101  2456777777765432     1000 1112233455677777776553

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.59  E-value=0.0024  Score=68.22  Aligned_cols=186  Identities=15%  Similarity=0.126  Sum_probs=98.3

Q ss_pred             cccchhhHHHHHHHHHHHHh---C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          157 DFEAFDSRMKLFQDVVEALR---N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ...+++|.+..++.+.+.+.   .         ...+-+.|+|++|+||||+|+.+++....  .|   +.++.+.-.. 
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~--~~---~~i~~~~~~~-   83 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV--PF---FTISGSDFVE-   83 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC--CE---EEECSCSSTT-
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC--CE---EEEeHHHHHH-
Confidence            35678887777766655432   2         11345889999999999999999987642  12   3333322110 


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccc------cc------c
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKD------RK------Q  292 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~------~~------~  292 (1209)
                                     ............+.+......+.++++|+++....-..  ..+..+....      .+      .
T Consensus        84 ---------------~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~--~~~~~~~~~~~~~~~~ll~~l~~~~  146 (257)
T 1lv7_A           84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG--AGLGGGHDEREQTLNQMLVEMDGFE  146 (257)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCS--TTSCCTTCHHHHHHHHHHHHHHTCC
T ss_pred             ---------------HhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCC--CCcCCCchHHHHHHHHHHHHhhCcc
Confidence                           00011133444555555445678999999865421000  0000000000      00      0


Q ss_pred             ccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCC-ChhHHHHH
Q 038494          293 DLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGG-LPVALSTV  367 (1209)
Q Consensus       293 ~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~g-lPLai~~~  367 (1209)
                      ...+..||.||..........    .-...+.++..+.++-.+++........-.++  .....+++.+.| .+--|..+
T Consensus       147 ~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~--~~~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD--IDAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCCHHHHHHH
T ss_pred             cCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcc--ccHHHHHHHcCCCCHHHHHHH
Confidence            113455666776543221111    12357888888888888888877653221111  113456777777 66555443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.53  E-value=0.0003  Score=88.07  Aligned_cols=150  Identities=17%  Similarity=0.218  Sum_probs=88.1

Q ss_pred             ccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccC----C-EEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----D-KVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~-~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...++||+++++.+.+.+......-+.++|.+|+|||++|+.+++........    + .++.++.              
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~--------------  244 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM--------------  244 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------------
T ss_pred             CCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc--------------
Confidence            45789999999999999987666678899999999999999999987332110    1 1222222              


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhh----
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHL----  308 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v----  308 (1209)
                         +......  .......+.......++.+|++|  ...+....+...+..          ...++|.||.....    
T Consensus       245 ---g~~~~G~--~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~~----------~~v~~I~at~~~~~~~~~  307 (758)
T 3pxi_A          245 ---GTKYRGE--FEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLAR----------GELQCIGATTLDEYRKYI  307 (758)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTTS----------SSCEEEEECCTTTTHHHH
T ss_pred             ---cccccch--HHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHhc----------CCEEEEeCCChHHHHHHh
Confidence               0000000  02233445555555677899999  222222223322221          34566666654431    


Q ss_pred             --hcccCCcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          309 --LTNDMNSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       309 --~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                        -.........+.++..+.++..+++.....
T Consensus       308 ~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          308 EKDAALERRFQPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             TTCSHHHHSEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             hccHHHHhhCcEEEeCCCCHHHHHHHHHHHHH
Confidence              111112336799999999999999987654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.52  E-value=0.00074  Score=84.71  Aligned_cols=157  Identities=17%  Similarity=0.211  Sum_probs=95.9

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEE-EEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVM-AEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~w-v~~s~~~~~~~l~~~i  231 (1209)
                      ....++||+.+++.+++.+......-+.|+|.+|+|||++|+.+++.......    .+..+| ++++.-          
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----------  253 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------  253 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----------
Confidence            35578999999999999998766677899999999999999999987743211    222222 222111          


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--------C---ccccCCCCCCCCccccccccCCcEEE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--------G---LEEIGIPFGDVDEKDRKQDLRRRTII  300 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--------~---~~~l~~~~~~~~~~~~~~~~~~s~il  300 (1209)
                         +... ............+.+.+...++.+|++||++...        .   ...+...+..          .+.++|
T Consensus       254 ---~~~~-~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~----------~~~~~I  319 (758)
T 1r6b_X          254 ---LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS----------GKIRVI  319 (758)
T ss_dssp             ----CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS----------CCCEEE
T ss_pred             ---hccc-cccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC----------CCeEEE
Confidence               0000 1111224455666666665567999999998651        0   1112222211          345666


Q ss_pred             Eeccchhhh------cccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          301 LTSRSKHLL------TNDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       301 vTtR~~~v~------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      .+|......      .........+.++..+.++..+++....
T Consensus       320 ~at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          320 GSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             EEeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            666543311      0011233578999999999999887654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.46  E-value=0.0047  Score=70.68  Aligned_cols=122  Identities=14%  Similarity=0.258  Sum_probs=72.6

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCC
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLE  615 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~  615 (1209)
                      +|.+|+++.+..   .+..+.+..|.++.+|+.+++..+ ++.++. .+..+.+|+.+.+..+ +..+  ..+.++..+.
T Consensus        69 ~c~~L~~i~lp~---~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~~~  143 (394)
T 4fs7_A           69 GCRKVTEIKIPS---TVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDFKE  143 (394)
T ss_dssp             TCTTEEEEECCT---TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCCSE
T ss_pred             CCCCceEEEeCC---CccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCc-eeeecceeeecccccc
Confidence            577888888753   356677778888888888888754 555544 5777777777666543 3333  3444443332


Q ss_pred             EEEccCCCCCcc-chhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          616 ILSFRYSDIKQL-PLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       616 ~L~l~~~~~~~l-p~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      .....  .+..+ ...+.++.+|+.+.+..  .+..++...+..+.+|+.+.+..
T Consensus       144 ~~~~~--~~~~i~~~aF~~c~~L~~i~l~~--~~~~I~~~~F~~c~~L~~i~l~~  194 (394)
T 4fs7_A          144 ITIPE--GVTVIGDEAFATCESLEYVSLPD--SMETLHNGLFSGCGKLKSIKLPR  194 (394)
T ss_dssp             EECCT--TCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCBCCCCT
T ss_pred             cccCc--cccccchhhhcccCCCcEEecCC--ccceeccccccCCCCceEEEcCC
Confidence            22221  22222 22356667777777654  34445555566677777766644

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.44  E-value=0.00027  Score=77.01  Aligned_cols=146  Identities=13%  Similarity=0.120  Sum_probs=86.9

Q ss_pred             hHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhh-c-ccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCC
Q 038494          163 SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME-D-KVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNF  239 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~-~-~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~  239 (1209)
                      |-++.++.+.+.+..+..+...++|+.|+||||+|+.+++.... . .+.+ +.++..+. ...+.++ +.+.+.+....
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~i-r~li~~~~~~p   78 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHHH-HHHHHHHhhcc
Confidence            34455677777777666778999999999999999999985321 1 2333 34555432 2333332 22333332110


Q ss_pred             CCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccch-hhhcccCCcc
Q 038494          240 DLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLLTNDMNSQ  316 (1209)
Q Consensus       240 ~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~~~~~~~~  316 (1209)
                      .                 .+++-++|+|+++...  ..+.+...+-...        +.+.+|++|.+. .+....... 
T Consensus        79 ~-----------------~~~~kvviIdead~lt~~a~naLLk~LEep~--------~~t~fIl~t~~~~kl~~tI~SR-  132 (305)
T 2gno_A           79 E-----------------LYTRKYVIVHDCERMTQQAANAFLKALEEPP--------EYAVIVLNTRRWHYLLPTIKSR-  132 (305)
T ss_dssp             S-----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCC--------TTEEEEEEESCGGGSCHHHHTT-
T ss_pred             c-----------------cCCceEEEeccHHHhCHHHHHHHHHHHhCCC--------CCeEEEEEECChHhChHHHHce-
Confidence            0                 1456799999998763  3333332221111        466677766544 333222223 


Q ss_pred             eEEEcCCCCHHHHHHHHHHHh
Q 038494          317 KIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       317 ~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                       .+++.++++++..+.+.+..
T Consensus       133 -~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          133 -VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             -SEEEECCCCHHHHHHHHHHH
T ss_pred             -eEeCCCCCHHHHHHHHHHHh
Confidence             89999999999999998876

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.42  E-value=0.00011  Score=74.05  Aligned_cols=109  Identities=15%  Similarity=0.111  Sum_probs=65.5

Q ss_pred             hhhcCCCCCcEEEecCc-ccc-----cccccccCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCCc--
Q 038494          561 LFFEGTEDLKVLSLSGI-HFS-----SLSSSLGHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIKQ--  626 (1209)
Q Consensus       561 ~~~~~l~~Lr~L~L~~~-~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~~--  626 (1209)
                      ..+...+.|+.|+|++| .+.     .+...+....+|++|+|++|.+..-      ..+...+.|++|++++|.+..  
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g  109 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSG  109 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHH
T ss_pred             HHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHH
Confidence            34566777777777777 665     2445566667777777777776542      344555677777777776662  


Q ss_pred             ---cchhccCCCCCCEEec--cCCCCCcccC----chhhcCCCCCcEEECCCC
Q 038494          627 ---LPLEIGQLAQLQLLDL--SNCSSLVVIA----PNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       627 ---lp~~i~~L~~L~~L~l--~~~~~l~~~~----~~~l~~L~~L~~L~l~~~  670 (1209)
                         +...+...++|++|++  ++ +.+....    ...+...++|++|++++|
T Consensus       110 ~~~l~~~L~~n~~L~~L~L~~~~-N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          110 ILALVEALQSNTSLIELRIDNQS-QPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             HHHHHHGGGGCSSCCEEECCCCS-SCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHHHHhCCCceEEEecCCC-CCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence               4455666667777777  44 3343221    112334456666666554

>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=97.39  E-value=0.00013  Score=77.14  Aligned_cols=79  Identities=25%  Similarity=0.221  Sum_probs=55.8

Q ss_pred             cCCCCCcEEEecCccccccc---ccccCCCCCcEEeccCcccCCcccccCCC--CCCEEEccCCCCC-ccch-------h
Q 038494          564 EGTEDLKVLSLSGIHFSSLS---SSLGHLINLQTLCLDWCQLEDVAAIGQLK--KLEILSFRYSDIK-QLPL-------E  630 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp---~~i~~l~~L~~L~l~~~~l~~l~~i~~L~--~L~~L~l~~~~~~-~lp~-------~  630 (1209)
                      .+++.|+.|+|++|.++.++   ..+..+++|++|+|++|.++.+..+..+.  +|++|++++|.+. .+|.       .
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~i  246 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            56788888888888887543   55678888888888888887765555555  7888888888765 2331       2


Q ss_pred             ccCCCCCCEEec
Q 038494          631 IGQLAQLQLLDL  642 (1209)
Q Consensus       631 i~~L~~L~~L~l  642 (1209)
                      +..+++|+.||-
T Consensus       247 l~~~P~L~~LDg  258 (267)
T 3rw6_A          247 RERFPKLLRLDG  258 (267)
T ss_dssp             HHHCTTCCEESS
T ss_pred             HHHCcccCeECC
Confidence            456666666653

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.39  E-value=0.00013  Score=73.46  Aligned_cols=107  Identities=13%  Similarity=0.072  Sum_probs=80.0

Q ss_pred             CCCCccEEEeccC-CCccc--ccChhhhcCCCCCcEEEecCccccc-----ccccccCCCCCcEEeccCcccCC-----c
Q 038494          539 ECPQLKLLLLLAN-GDSYL--EISHLFFEGTEDLKVLSLSGIHFSS-----LSSSLGHLINLQTLCLDWCQLED-----V  605 (1209)
Q Consensus       539 ~~~~L~~L~l~~~-~~~~~--~~~~~~~~~l~~Lr~L~L~~~~i~~-----lp~~i~~l~~L~~L~l~~~~l~~-----l  605 (1209)
                      ..++|++|++.+| .....  ......+...+.|++|+|++|.+.+     +...+....+|++|+|++|.+..     +
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHH
Confidence            4577888888776 42111  1122345678899999999999863     55667777899999999999865     3


Q ss_pred             -ccccCCCCCCEEEc--cCCCCCc-----cchhccCCCCCCEEeccCC
Q 038494          606 -AAIGQLKKLEILSF--RYSDIKQ-----LPLEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       606 -~~i~~L~~L~~L~l--~~~~~~~-----lp~~i~~L~~L~~L~l~~~  645 (1209)
                       ..+...+.|++|++  ++|.+..     +...+...++|++|++++|
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence             67778889999999  7788773     4556677789999999984

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.28  E-value=5.1e-05  Score=73.00  Aligned_cols=46  Identities=13%  Similarity=0.123  Sum_probs=35.0

Q ss_pred             chhhHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|+...++++.+.+.  ......|.|+|.+|+|||++|+.+++...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC
Confidence            46788888888888775  22334578999999999999999987653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.23  E-value=0.017  Score=65.94  Aligned_cols=111  Identities=11%  Similarity=0.168  Sum_probs=64.4

Q ss_pred             ccccChhhhcCCC-CCcEEEecCcccccccc-cccCCCCCcEEeccCcc---cCCc--ccccCCCCCCEEEccCCCCCcc
Q 038494          555 YLEISHLFFEGTE-DLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQ---LEDV--AAIGQLKKLEILSFRYSDIKQL  627 (1209)
Q Consensus       555 ~~~~~~~~~~~l~-~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~---l~~l--~~i~~L~~L~~L~l~~~~~~~l  627 (1209)
                      ...+.+..|.+++ .|+.+.+..+ ++.+.+ +|.++.+|+.+.+..+.   ++.+  ..|..+.+|+.+.+.. .++.+
T Consensus        51 Vt~Ig~~aF~~~~~~L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~-~~~~I  128 (394)
T 4gt6_A           51 VSKIGDRVFCNYKYVLTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILD-SVTEI  128 (394)
T ss_dssp             EEEECTTTTTTCCSCCCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGT-TCSEE
T ss_pred             eeEcCHhhccCCCCcCEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCC-cccee
Confidence            4455566666664 4677777643 555533 56677777777766543   4444  4566666666665543 24444


Q ss_pred             ch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          628 PL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       628 p~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      +. .+..+.+|+.+.+..  .+..+....+..+.+|+.+.+..
T Consensus       129 ~~~aF~~c~~L~~i~lp~--~~~~I~~~~F~~c~~L~~i~~~~  169 (394)
T 4gt6_A          129 DSEAFHHCEELDTVTIPE--GVTSVADGMFSYCYSLHTVTLPD  169 (394)
T ss_dssp             CTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCEEECCT
T ss_pred             hhhhhhhhcccccccccc--eeeeecccceecccccccccccc
Confidence            33 356667777777654  34445555566677777776644

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.22  E-value=0.0035  Score=72.28  Aligned_cols=179  Identities=12%  Similarity=0.141  Sum_probs=96.9

Q ss_pred             ccchhhHHHHHHHHHHHHh---CC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---ND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ..+++|.++.++++.+.+.   ..         -.+-|.|+|++|+|||++|+.++......     .+.++.+.-... 
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~-----f~~is~~~~~~~-   88 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP-----FFHISGSDFVEL-   88 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC-----EEEEEGGGTTTC-
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC-----eeeCCHHHHHHH-
Confidence            4567787776666655433   21         12458899999999999999999876431     234444332110 


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcc------ccc------cc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEK------DRK------QD  293 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~------~~~------~~  293 (1209)
                               +      ........+.+........+.+|++|+++....-..  .........      ..+      ..
T Consensus        89 ---------~------~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~--~~~~g~~~~~~~~l~~LL~~ld~~~~  151 (476)
T 2ce7_A           89 ---------F------VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRG--AGLGGGHDEREQTLNQLLVEMDGFDS  151 (476)
T ss_dssp             ---------C------TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC-----------CHHHHHHHHHHHHHHHSCG
T ss_pred             ---------H------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcc--cccCcCcHHHHHHHHHHHHHHhccCC
Confidence                     0      000123334444444446789999999976421000  000000000      000      01


Q ss_pred             cCCcEEEEeccchhhhccc-C---CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          294 LRRRTIILTSRSKHLLTND-M---NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ..+..||.||...+..... .   .-...+.++..+.++-.+++..++......++.  ....|++.+.|..
T Consensus       152 ~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v--~l~~la~~t~G~s  221 (476)
T 2ce7_A          152 KEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV--NLEIIAKRTPGFV  221 (476)
T ss_dssp             GGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             CCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh--hHHHHHHhcCCCc
Confidence            1355666677665433211 1   223478899888888888888777532211111  1345788888876

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.22  E-value=0.0003  Score=78.84  Aligned_cols=126  Identities=19%  Similarity=0.202  Sum_probs=63.6

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCccccc-cccccc--CCCCCcEEeccCc--c------cCCc-c
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSS-LSSSLG--HLINLQTLCLDWC--Q------LEDV-A  606 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~-lp~~i~--~l~~L~~L~l~~~--~------l~~l-~  606 (1209)
                      .+|+|+.|.+.++.  ...++.  + .+++|+.|+|..+.+.. ....++  .+++|++|+|+.+  .      +..+ .
T Consensus       170 ~~P~L~~L~L~g~~--~l~l~~--~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~  244 (362)
T 2ra8_A          170 AMPLLNNLKIKGTN--NLSIGK--K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP  244 (362)
T ss_dssp             TCTTCCEEEEECCB--TCBCCS--C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG
T ss_pred             cCCCCcEEEEeCCC--Cceecc--c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH
Confidence            45667777766542  112222  2 25667777776665541 111222  5667777766421  1      2222 1


Q ss_pred             cc--cCCCCCCEEEccCCCCCc-cchhc---cCCCCCCEEeccCCCCCcccC----chhhcCCCCCcEEECCCC
Q 038494          607 AI--GQLKKLEILSFRYSDIKQ-LPLEI---GQLAQLQLLDLSNCSSLVVIA----PNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       607 ~i--~~L~~L~~L~l~~~~~~~-lp~~i---~~L~~L~~L~l~~~~~l~~~~----~~~l~~L~~L~~L~l~~~  670 (1209)
                      .+  ..+++|++|++++|.+.. .+..+   ..+++|++|+++. +.+....    ...+.++++|+.|+++.|
T Consensus       245 ~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          245 LFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             GSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             HHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            12  245677777777665541 11111   2456777777765 4444321    111344567777777655

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.21  E-value=0.039  Score=62.95  Aligned_cols=120  Identities=12%  Similarity=0.151  Sum_probs=85.4

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcc---cccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCC
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIH---FSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLE  615 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~---i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~  615 (1209)
                      .|+++.+-.   .+..+.+..|.++.+|+.+.+..+.   ++.++. +|..+.+|+.+.+..+ ++.+  ..+..+.+|+
T Consensus        65 ~L~sI~iP~---svt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~  140 (394)
T 4gt6_A           65 VLTSVQIPD---TVTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELD  140 (394)
T ss_dssp             CCCEEEECT---TCCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCC
T ss_pred             cCEEEEECC---CeeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhcccc
Confidence            478887754   3667788889999999999998763   556654 6778888888777654 5555  6678889999


Q ss_pred             EEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCC
Q 038494          616 ILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGD  669 (1209)
Q Consensus       616 ~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~  669 (1209)
                      .+.+..+ +..++ ..+..+.+|+.+.+..  .+..+....+. ..+|..+.+..
T Consensus       141 ~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~--~~~~I~~~aF~-~~~l~~i~ip~  191 (394)
T 4gt6_A          141 TVTIPEG-VTSVADGMFSYCYSLHTVTLPD--SVTAIEERAFT-GTALTQIHIPA  191 (394)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCEEECCT--TCCEECTTTTT-TCCCSEEEECT
T ss_pred             cccccce-eeeecccceecccccccccccc--eeeEecccccc-ccceeEEEECC
Confidence            9998753 44443 3467788899998875  45566555454 35677777654

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.19  E-value=0.00091  Score=67.00  Aligned_cols=91  Identities=19%  Similarity=0.245  Sum_probs=55.1

Q ss_pred             hHHHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC
Q 038494          163 SRMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF  239 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~  239 (1209)
                      ++.+.++.+.+++.+   .....+.|+|++|+||||||+.+++.......+ .+++++      ..++...+........
T Consensus        18 ~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~~------~~~~~~~~~~~~~~~~   90 (180)
T 3ec2_A           18 SQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFFD------TKDLIFRLKHLMDEGK   90 (180)
T ss_dssp             HHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEEE------HHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEEE------HHHHHHHHHHHhcCch
Confidence            355556666666543   234689999999999999999999988632222 233333      4445544444332111


Q ss_pred             CCCCChHHHHHHHHHHHhcCCeEEEEEeCCCc
Q 038494          240 DLNDSKPHRAKQLCQRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       240 ~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~  271 (1209)
                      .     .    .+.+.+.  +.-+||+||++.
T Consensus        91 ~-----~----~~~~~~~--~~~llilDE~~~  111 (180)
T 3ec2_A           91 D-----T----KFLKTVL--NSPVLVLDDLGS  111 (180)
T ss_dssp             C-----S----HHHHHHH--TCSEEEEETCSS
T ss_pred             H-----H----HHHHHhc--CCCEEEEeCCCC
Confidence            1     1    2333443  456899999984

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.18  E-value=0.0023  Score=74.55  Aligned_cols=181  Identities=12%  Similarity=0.157  Sum_probs=101.3

Q ss_pred             ccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      ...++|.+..++++.+++..             ...+-|.|+|.+|+|||++|+.+++....     ..+.++++.    
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~-----~fv~vn~~~----  273 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPE----  273 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS-----EEEEEEHHH----
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC-----CEEEEEchH----
Confidence            45688999999888887652             33457899999999999999999877531     223344311    


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-------------ccccCCCCCCCCccccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-------------LEEIGIPFGDVDEKDRK  291 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-------------~~~l~~~~~~~~~~~~~  291 (1209)
                        +    ...+      ..........+......+++.+|++|+++....             ...+...+...      
T Consensus       274 --l----~~~~------~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~------  335 (489)
T 3hu3_A          274 --I----MSKL------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL------  335 (489)
T ss_dssp             --H----HTSC------TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHS------
T ss_pred             --h----hhhh------cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhcc------
Confidence              1    1100      011122333444444446789999999964311             00010000000      


Q ss_pred             cccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCC-hhHHHH
Q 038494          292 QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGL-PVALST  366 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~gl-PLai~~  366 (1209)
                      ....+..||.||..........    .....+.+...+.++-.+++..++.......+  ....++++.+.|. +-.+..
T Consensus       336 ~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~--~~l~~la~~t~g~s~~dL~~  413 (489)
T 3hu3_A          336 KQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHVGADLAA  413 (489)
T ss_dssp             CTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT--CCHHHHHHTCTTCCHHHHHH
T ss_pred             ccCCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch--hhHHHHHHHccCCcHHHHHH
Confidence            0013445665666543221111    22357899999999999999988753222111  1234677777764 544544


Q ss_pred             H
Q 038494          367 V  367 (1209)
Q Consensus       367 ~  367 (1209)
                      +
T Consensus       414 L  414 (489)
T 3hu3_A          414 L  414 (489)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.17  E-value=0.00019  Score=77.53  Aligned_cols=177  Identities=16%  Similarity=0.173  Sum_probs=88.6

Q ss_pred             ccchhhHHHHHHHHHHHHh---C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ...++|.+..++.+.+.+.   .         ...+-+.|+|++|+|||++|+.+++.....  |-   .+..+.-.+. 
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~~---~v~~~~~~~~-   83 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP--FF---SMGGSSFIEM-   83 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC--CC---CCCSCTTTTS-
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--EE---EechHHHHHh-
Confidence            4567776666666555443   1         112347799999999999999999876532  21   1111111000 


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC-----------------ccccCCCCCCCCcc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG-----------------LEEIGIPFGDVDEK  288 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~-----------------~~~l~~~~~~~~~~  288 (1209)
                              ..+....       ....+.......++.+|++||++....                 ...+...+....  
T Consensus        84 --------~~~~~~~-------~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--  146 (268)
T 2r62_A           84 --------FVGLGAS-------RVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG--  146 (268)
T ss_dssp             --------CSSSCSS-------SSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS--
T ss_pred             --------hcchHHH-------HHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc--
Confidence                    0010000       011122222224668999999975421                 111211111100  


Q ss_pred             ccccccCCcEEEEeccchhhhccc-C---CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          289 DRKQDLRRRTIILTSRSKHLLTND-M---NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~v~~~~-~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                         .......||.||......... .   .....+.++..+.++-.+++...+.......+.  ....|++.+.|.|-
T Consensus       147 ---~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~g~~g  219 (268)
T 2r62_A          147 ---SENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDV--NLQEVAKLTAGLAG  219 (268)
T ss_dssp             ---CSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSC--CTTTTTSSSCSSCH
T ss_pred             ---cCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCcc--CHHHHHHHcCCCCH
Confidence               000234566677655322111 1   123567888899999999998876532111110  11245566667654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.14  E-value=0.00076  Score=69.10  Aligned_cols=90  Identities=20%  Similarity=0.258  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHhCCC----ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCC
Q 038494          164 RMKLFQDVVEALRNDK----LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNF  239 (1209)
Q Consensus       164 R~~~~~~l~~~L~~~~----~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~  239 (1209)
                      +...++.+.+++....    ...+.|+|.+|+|||+||+.+++....+  ...++|++++      .+...+......  
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~------~~~~~~~~~~~~--  103 (202)
T 2w58_A           34 RIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP------ELFRELKHSLQD--  103 (202)
T ss_dssp             HHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH------HHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH------HHHHHHHHHhcc--
Confidence            4445566666665331    1688999999999999999999888643  3346666553      344444432211  


Q ss_pred             CCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          240 DLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       240 ~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        ...     ..+...+.+ . -+||+||++..
T Consensus       104 --~~~-----~~~~~~~~~-~-~~lilDei~~~  127 (202)
T 2w58_A          104 --QTM-----NEKLDYIKK-V-PVLMLDDLGAE  127 (202)
T ss_dssp             --CCC-----HHHHHHHHH-S-SEEEEEEECCC
T ss_pred             --chH-----HHHHHHhcC-C-CEEEEcCCCCC
Confidence              111     123333432 2 39999999654

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.02  E-value=0.0024  Score=70.45  Aligned_cols=46  Identities=30%  Similarity=0.288  Sum_probs=37.4

Q ss_pred             chhhHHHHHHHHHHHHhC--------------CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALRN--------------DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|++..++.+...+..              .....+.|+|.+|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999888888877753              2345688999999999999999998774

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.01  E-value=0.0031  Score=77.09  Aligned_cols=177  Identities=12%  Similarity=0.136  Sum_probs=99.6

Q ss_pred             ccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      +.++.|-++.+++|.+++.    .         ...+-|.++|++|+|||+||+.+++.....     .+.++.++    
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~~----  273 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE----  273 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHHH----
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhHH----
Confidence            4556676666666665543    1         124678999999999999999999876532     34454321    


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcccc-----------ccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR-----------KQD  293 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~-----------~~~  293 (1209)
                        +    .   +.   .....+..++.+.+......+.+|++|+++....-..    -..+....+           ...
T Consensus       274 --l----~---sk---~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~----~~~~~~~~riv~~LL~~mdg~~~  337 (806)
T 3cf2_A          274 --I----M---SK---LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKRE----KTHGEVERRIVSQLLTLMDGLKQ  337 (806)
T ss_dssp             --H----H---SS---CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTT----TCCCTTHHHHHHHHHTHHHHCCG
T ss_pred             --h----h---cc---cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccC----CCCChHHHHHHHHHHHHHhcccc
Confidence              1    1   10   0111244555666666556789999999986521000    000000000           001


Q ss_pred             cCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          294 LRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ..+-.||.||...+......    .-...++++..+.++-.++|..+........+  ....+|++++.|.-
T Consensus       338 ~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~d--vdl~~lA~~T~Gfs  407 (806)
T 3cf2_A          338 RAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHV  407 (806)
T ss_dssp             GGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTT--CCHHHHHHHCCSCC
T ss_pred             cCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcc--cCHHHHHHhcCCCC
Confidence            13344555666554332222    23467899999999999999887753221111  11347888887764

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.95  E-value=0.0038  Score=72.73  Aligned_cols=48  Identities=19%  Similarity=0.175  Sum_probs=36.9

Q ss_pred             ccchhhHHHHHHHHHHHH---hCCC--ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          158 FEAFDSRMKLFQDVVEAL---RNDK--LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L---~~~~--~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|.++.++.+..++   ..+.  .+-+.++|++|+|||++|+.+++...
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            467889988877655443   3332  35788999999999999999998875

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=96.94  E-value=0.00025  Score=75.08  Aligned_cols=80  Identities=20%  Similarity=0.231  Sum_probs=54.6

Q ss_pred             cCCCCCcEEeccCcccCCcc----cccCCCCCCEEEccCCCCCccchhccCCC--CCCEEeccCCCCCcccC------ch
Q 038494          587 GHLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRYSDIKQLPLEIGQLA--QLQLLDLSNCSSLVVIA------PN  654 (1209)
Q Consensus       587 ~~l~~L~~L~l~~~~l~~l~----~i~~L~~L~~L~l~~~~~~~lp~~i~~L~--~L~~L~l~~~~~l~~~~------~~  654 (1209)
                      .++++|++|+|++|.++.+.    .+..+++|++|+|++|.++.+ ..+..+.  +|++|+++++.-...++      ..
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            56888999999999887763    345788888899888888766 3344444  88888888843222222      12


Q ss_pred             hhcCCCCCcEEEC
Q 038494          655 VISKFSRLEELYM  667 (1209)
Q Consensus       655 ~l~~L~~L~~L~l  667 (1209)
                      .+..+++|+.|+.
T Consensus       246 il~~~P~L~~LDg  258 (267)
T 3rw6_A          246 IRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHCTTCCEESS
T ss_pred             HHHHCcccCeECC
Confidence            3566777777763

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.89  E-value=0.0015  Score=72.11  Aligned_cols=105  Identities=19%  Similarity=0.245  Sum_probs=60.8

Q ss_pred             chhhHHHHHHHHHHHHhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+++.....  -...+.++++.-..... .  
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~~-~--   92 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHA-V--   92 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTTH-H--
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeeccccccccc-H--
Confidence            4678888888887777632         13578999999999999999999887532  12345566654332211 1  


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                       .+.++........  .....+...+.....-+|++|+++..
T Consensus        93 -~~l~g~~~~~~~~--~~~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           93 -SRLIGAPPGYVGY--EEGGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             -HHHHCCCTTSTTT--TTCCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             -HHhcCCCCccccc--cccchHHHHHHhCCCeEEEEeChhhc
Confidence             1122221111100  00012333333345579999999865

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.80  E-value=0.01  Score=65.94  Aligned_cols=182  Identities=18%  Similarity=0.183  Sum_probs=95.3

Q ss_pred             ccccchhhHHHHHHHHHHHHhC-----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRN-----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .....++|.+..++.+.-.+..     .....+.|+|++|+||||||+.++......  |.   .....-.....+    
T Consensus        22 ~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~--~~---~~sg~~~~~~~~----   92 (334)
T 1in4_A           22 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN--IH---VTSGPVLVKQGD----   92 (334)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC--EE---EEETTTCCSHHH----
T ss_pred             ccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--EE---EEechHhcCHHH----
Confidence            3456788888777777666642     233678999999999999999999987432  11   111111111111    


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCC---CC------CCCccccc-cccCCcE
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIP---FG------DVDEKDRK-QDLRRRT  298 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~---~~------~~~~~~~~-~~~~~s~  298 (1209)
                                        ...+...+  .++.++++|++....  ..+.+...   ..      .+...... ...+...
T Consensus        93 ------------------l~~~~~~~--~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           93 ------------------MAAILTSL--ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             ------------------HHHHHHHC--CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             ------------------HHHHHHHc--cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeE
Confidence                              11112222  234577788876542  11111000   00      00000000 0001222


Q ss_pred             EEE-eccchhhhccc-CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHH
Q 038494          299 IIL-TSRSKHLLTND-MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTV  367 (1209)
Q Consensus       299 ilv-TtR~~~v~~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~  367 (1209)
                      ++- |++...+.... ........+++.+.++-.+++.+.+.... ..-..+.+..|+++++|.|-.+..+
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~-~~~~~~~~~~ia~~~~G~~R~a~~l  222 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAIRL  222 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHhcCCChHHHHHH
Confidence            332 34332221100 11224688999999999999988764211 1233567889999999999755443

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.73  E-value=0.022  Score=60.48  Aligned_cols=151  Identities=12%  Similarity=0.138  Sum_probs=77.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCe
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKR  261 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~  261 (1209)
                      -+.|+|++|+||||||+.++.....     ..+.+...      ++    ....      .......+..+.+......+
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~~~~-----~~i~~~~~------~~----~~~~------~~~~~~~i~~~~~~~~~~~~  109 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGEARV-----PFITASGS------DF----VEMF------VGVGAARVRDLFETAKRHAP  109 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH------HH----HHSC------TTHHHHHHHHHHHHHTTSSS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC-----CEEEeeHH------HH----HHHH------hhHHHHHHHHHHHHHHhcCC
Confidence            3899999999999999999987642     22333321      11    1100      00012233344444433356


Q ss_pred             EEEEEeCCCcccCc----------------cccCCCCCCCCccccccccCCcEEEEeccchhhhcccC----CcceEEEc
Q 038494          262 VLIILDNIWKKLGL----------------EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLI  321 (1209)
Q Consensus       262 ~LlvlDdv~~~~~~----------------~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l  321 (1209)
                      .++++||++.....                ..+...+..+.      ......++.||..........    .-...+.+
T Consensus       110 ~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~------~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i  183 (254)
T 1ixz_A          110 CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE------KDTAIVVMAATNRPDILDPALLRPGRFDRQIAI  183 (254)
T ss_dssp             EEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC------TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEEC
T ss_pred             eEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCC------CCCCEEEEEccCCchhCCHHHcCCCcCCeEEee
Confidence            89999999643110                01100000000      002233444565554432222    23457889


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          322 EVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       322 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      +..+.++-.+++..........++  .....+++.+.|.-
T Consensus       184 ~~p~~~~r~~il~~~~~~~~~~~~--~~~~~la~~~~G~~  221 (254)
T 1ixz_A          184 DAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFV  221 (254)
T ss_dssp             CSCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCC
T ss_pred             CCcCHHHHHHHHHHHHcCCCCCcc--cCHHHHHHHcCCCC
Confidence            999998888888877643211111  11335667776653

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.71  E-value=0.0066  Score=72.07  Aligned_cols=166  Identities=22%  Similarity=0.190  Sum_probs=77.9

Q ss_pred             cchhhHHHHHHHHHHHHh------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALR------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..++|-++..+.+.+.+.      ......+.++|++|+||||+|+.++......  |.   -+.++...+...+.....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~--~~---~i~~~~~~~~~~~~g~~~  155 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK--FV---RISLGGVRDESEIRGHRR  155 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE--EE---EECCCC------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC--eE---EEEecccchhhhhhhHHH
Confidence            345676666666554433      2245689999999999999999999887532  32   233333222222211111


Q ss_pred             HHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC------ccccCCCCCCCCccccc-------cccCCcEE
Q 038494          233 SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG------LEEIGIPFGDVDEKDRK-------QDLRRRTI  299 (1209)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~------~~~l~~~~~~~~~~~~~-------~~~~~s~i  299 (1209)
                      ...+..       ............. ..-++++|+++....      ...+...+.......+.       .......+
T Consensus       156 ~~ig~~-------~~~~~~~~~~a~~-~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~i  227 (543)
T 3m6a_A          156 TYVGAM-------PGRIIQGMKKAGK-LNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLF  227 (543)
T ss_dssp             ---------------CHHHHHHTTCS-SSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEE
T ss_pred             HHhccC-------chHHHHHHHHhhc-cCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEE
Confidence            111110       1111112222211 334888999986521      12222222111100000       00134456


Q ss_pred             EEeccchhhhc-ccCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          300 ILTSRSKHLLT-NDMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       300 lvTtR~~~v~~-~~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      |.||....... ........+.+++++.++-.+++..+.
T Consensus       228 I~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          228 IATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             EeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            66666543221 111233578899999988888877653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.68  E-value=0.012  Score=62.96  Aligned_cols=161  Identities=12%  Similarity=0.124  Sum_probs=84.4

Q ss_pred             cccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          157 DFEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      .+.++.|-++.++.|.+.+.    .         .-.+-+.|+|++|+||||||+.++.....     ..+++...+-.+
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~   82 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLN   82 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCS
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHh
Confidence            35667788877777776543    1         11123899999999999999999987543     244554432211


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCC-CCCCCccccc---cc---cCC
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIP-FGDVDEKDRK---QD---LRR  296 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~-~~~~~~~~~~---~~---~~~  296 (1209)
                      .                ........+..+.+......+.++++|+++........... ..........   .+   ...
T Consensus        83 ~----------------~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~  146 (274)
T 2x8a_A           83 M----------------YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQ  146 (274)
T ss_dssp             S----------------TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTC
T ss_pred             h----------------hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCC
Confidence            0                00000223334444432346789999999764211000000 0000000000   01   123


Q ss_pred             cEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhC
Q 038494          297 RTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVG  338 (1209)
Q Consensus       297 s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~  338 (1209)
                      .-++.+|....+.....    .-...+.++..+.++-.++|+....
T Consensus       147 ~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          147 VFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             EEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             EEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            34555666665443221    3346788998999999999988764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.47  E-value=0.011  Score=64.10  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+.+.++|++|+|||++|+.+++...
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999999885

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.44  E-value=0.064  Score=57.65  Aligned_cols=177  Identities=12%  Similarity=0.136  Sum_probs=90.8

Q ss_pred             ccccchhhHHHHHHHHHHHHh---CC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          156 KDFEAFDSRMKLFQDVVEALR---ND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ....+++|.++.+.++.+...   ..         -.+-+.|+|++|+||||||+.++.....     ..+.+...    
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~-----~~i~~~~~----  107 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGS----  107 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH----
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCC-----CEEEecHH----
Confidence            335667787666555544332   10         1123899999999999999999987642     22333321    


Q ss_pred             HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC------------c----cccCCCCCCCCc
Q 038494          224 VQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG------------L----EEIGIPFGDVDE  287 (1209)
Q Consensus       224 ~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~------------~----~~l~~~~~~~~~  287 (1209)
                        ++    ....      .......+..+.+......+.++++||++....            +    ..+...+..+. 
T Consensus       108 --~~----~~~~------~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~-  174 (278)
T 1iy2_A          108 --DF----VEMF------VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE-  174 (278)
T ss_dssp             --HH----HHST------TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCC-
T ss_pred             --HH----HHHH------hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCC-
Confidence              11    1100      000122333444444334568999999964310            0    01100000000 


Q ss_pred             cccccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          288 KDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       288 ~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                           ......++.||..........    .-...+.++..+.++-.+++...+......++  .....+++.+.|..
T Consensus       175 -----~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~--~~~~~la~~~~G~~  245 (278)
T 1iy2_A          175 -----KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFV  245 (278)
T ss_dssp             -----TTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCC
T ss_pred             -----CCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcc--cCHHHHHHHcCCCC
Confidence                 002233444555554332111    23457889999999888888877643221111  11345777777754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.37  E-value=0.0015  Score=81.61  Aligned_cols=157  Identities=19%  Similarity=0.262  Sum_probs=83.2

Q ss_pred             cchhhHHHHHHHHHHHHhC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQD  229 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~  229 (1209)
                      ..++|.+..++.+.+.+..         .....+.++|++|+|||++|+.+++.....  -...+.++++.-......  
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~~~~~~~~--  566 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSEYMEKHST--  566 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGGGCSSCCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechhccccccc--
Confidence            4578999988888888762         112368999999999999999999887422  223455665432110000  


Q ss_pred             HHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCc---cccccccCCcEEEEecc
Q 038494          230 KLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDE---KDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~---~~~~~~~~~s~ilvTtR  304 (1209)
                                   .     ...+...+.....-+|+||+++...  ....+...+..+..   ..+.....+.+||+||.
T Consensus       567 -------------~-----~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          567 -------------S-----GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             -------------C--------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             -------------c-----cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence                         0     0011112222344589999998652  11111111000000   00000114668888887


Q ss_pred             chh-------------hhcccC-CcceEEEcCCCCHHHHHHHHHHHh
Q 038494          305 SKH-------------LLTNDM-NSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       305 ~~~-------------v~~~~~-~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      ...             ...... .-...+.+.+++.++-.+++....
T Consensus       629 ~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          629 VGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             SSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             CChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            311             000001 122589999999999888887654

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.22  E-value=0.02  Score=61.05  Aligned_cols=86  Identities=7%  Similarity=0.072  Sum_probs=59.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC----CChHHHH-HHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN----DSKPHRA-KQLCQRL  256 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~----~~~~~~~-~~l~~~l  256 (1209)
                      ++-|.|.+|+||||||.+++.....+..=..++|++..+.++..     .+++++.+.+..    ....+.+ ..+.+.+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            78999999999999999998776542112478999988887764     367777654321    1123333 3444444


Q ss_pred             ---hcCCeEEEEEeCCCcc
Q 038494          257 ---TKEKRVLIILDNIWKK  272 (1209)
Q Consensus       257 ---~~~k~~LlvlDdv~~~  272 (1209)
                         .+++.-+||+|-+...
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence               4567899999999765

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.21  E-value=0.023  Score=58.64  Aligned_cols=86  Identities=20%  Similarity=0.181  Sum_probs=52.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC-----------CCCCCCh-HH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN-----------FDLNDSK-PH  247 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~-----------~~~~~~~-~~  247 (1209)
                      ..++.|+|.+|+||||+|..++.  ..   -..++|++.....+...+.+ +.+..+..           ....... ..
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~--~~---~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL--LS---GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRR   93 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH--HH---CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH--Hc---CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHH
Confidence            46899999999999999999998  21   24788998877556655543 33333221           1111110 11


Q ss_pred             HHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          248 RAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       248 ~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ....+ ..+...+.-+||+|.+...
T Consensus        94 ~~~~~-~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           94 VIGSL-KKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHH-HHHCCTTEEEEEEECCCCC
T ss_pred             HHHHH-HHHhhcCCCEEEEcCcHHH
Confidence            22222 2333225789999998654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.19  E-value=0.02  Score=66.42  Aligned_cols=179  Identities=13%  Similarity=0.144  Sum_probs=90.3

Q ss_pred             ccchhhHHHHHHHHHHH---HhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEA---LRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~---L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ..+++|.++.+.++.+.   +...         -.+-|.|+|++|+|||+||+.++.....     ..+.++.+.-... 
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~-----~~i~i~g~~~~~~-  103 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFVEM-  103 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----CEEEEEGGGGTSS-
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEehhHHHHh-
Confidence            45677877666655544   3221         1234899999999999999999987642     2344444321100 


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcc------cc---ccc---
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEK------DR---KQD---  293 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~------~~---~~~---  293 (1209)
                                     ........+..+.+......+.++++|+++....-..-  ........      ..   +.+   
T Consensus       104 ---------------~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~--~~~~~~~e~~~~l~~LL~~Ldg~~~  166 (499)
T 2dhr_A          104 ---------------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS--GVGGGNDEREQTLNQLLVEMDGFEK  166 (499)
T ss_dssp             ---------------CTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSS--STTTSSHHHHHHHHHHHHHGGGCCS
T ss_pred             ---------------hhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhcc--CcCCCcHHHHHHHHHHHHHhccccc
Confidence                           00000111112222111124589999999754210000  00000000      00   000   


Q ss_pred             cCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          294 LRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       294 ~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ..+..++.||..........    .-...+.++..+.++-.+++..++....-.++  .....|++.+.|..
T Consensus       167 ~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~d--v~l~~lA~~t~G~~  236 (499)
T 2dhr_A          167 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFV  236 (499)
T ss_dssp             SCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCS--STTHHHHTTSCSCC
T ss_pred             CccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChH--HHHHHHHHhcCCCC
Confidence            13345555666665433222    22357889999999888998877643221111  11345677777765

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.09  E-value=0.0045  Score=66.37  Aligned_cols=69  Identities=22%  Similarity=0.270  Sum_probs=45.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc--CCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV--TENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTK  258 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~--s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  258 (1209)
                      +++.|+|++|+|||+||.+++....     ..++|+++  .+..+.             ..   .......+.+.+.+.+
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G-----~~VlyIs~~~eE~v~~-------------~~---~~le~~l~~i~~~l~~  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALG-----GKDKYATVRFGEPLSG-------------YN---TDFNVFVDDIARAMLQ  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHH-----TTSCCEEEEBSCSSTT-------------CB---CCHHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCC-----CCEEEEEecchhhhhh-------------hh---cCHHHHHHHHHHHHhh
Confidence            5778999999999999999998711     13456666  322110             00   2334555566666764


Q ss_pred             CCeEEEEEeCCCcc
Q 038494          259 EKRVLIILDNIWKK  272 (1209)
Q Consensus       259 ~k~~LlvlDdv~~~  272 (1209)
                       .+ +||+|++...
T Consensus       183 -~~-LLVIDsI~aL  194 (331)
T 2vhj_A          183 -HR-VIVIDSLKNV  194 (331)
T ss_dssp             -CS-EEEEECCTTT
T ss_pred             -CC-EEEEeccccc
Confidence             44 9999999754

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.90  E-value=0.027  Score=59.29  Aligned_cols=92  Identities=15%  Similarity=0.091  Sum_probs=57.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~~  246 (1209)
                      ..++.|+|.+|+|||||+..++.......    .-..++|++....+....+. .+++.++....         ......
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            46999999999999999999998643211    13578999887765555443 34455543310         111111


Q ss_pred             H---HHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          247 H---RAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ~---~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +   ....+.+.+...+.-+||+|++...
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence            1   2233444454457889999998654

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=95.88  E-value=0.04  Score=61.16  Aligned_cols=93  Identities=15%  Similarity=0.213  Sum_probs=59.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCCh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSK  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~  245 (1209)
                      ...++.|+|.+|+||||+|.+++.......    .-..++|++....++..++.. +++.++.+..         .....
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCH
Confidence            346899999999999999999998743211    134789999988877776643 4455554321         01111


Q ss_pred             H---HHHHHHHHHHhc--CCeEEEEEeCCCcc
Q 038494          246 P---HRAKQLCQRLTK--EKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ~---~~~~~l~~~l~~--~k~~LlvlDdv~~~  272 (1209)
                      .   .....+...+.+  .+.-+||+|.+...
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l  231 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMAL  231 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHHH
Confidence            1   222334444444  56779999988643

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.85  E-value=0.01  Score=64.81  Aligned_cols=54  Identities=19%  Similarity=0.295  Sum_probs=37.7

Q ss_pred             hHHHHHHHHHHHHhCC---CceEEEEEcCCCChHHHHHHHHHHHHh-hcccCCEEEEEEc
Q 038494          163 SRMKLFQDVVEALRND---KLNIIGVHGMGGVGKTTLVKQIAKQVM-EDKVFDKVVMAEV  218 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~  218 (1209)
                      ++...+..+.+++...   ....+.|+|.+|+|||+||..+++... .+ . ..+.++.+
T Consensus       132 ~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~-g-~~v~~~~~  189 (308)
T 2qgz_A          132 SRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKK-G-VSTTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHS-C-CCEEEEEH
T ss_pred             HHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhc-C-CcEEEEEH
Confidence            4555566666676632   246889999999999999999999876 43 2 23455554

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.84  E-value=0.032  Score=61.55  Aligned_cols=86  Identities=16%  Similarity=0.166  Sum_probs=56.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      ..++.|+|.+|+||||||.+++......  -..++|++....++..     .+++++.....     .....+....+..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~--gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~  133 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM--GGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDE  133 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHH
Confidence            4699999999999999999999877543  2357889887776654     45566554321     1222333333333


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+...+.-++|+|.+...
T Consensus       134 l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          134 LVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHTSCCSEEEEECTTTC
T ss_pred             HhhhcCCCeEEehHhhhh
Confidence            333355678999998654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.64  E-value=0.041  Score=60.57  Aligned_cols=92  Identities=22%  Similarity=0.253  Sum_probs=59.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~~  246 (1209)
                      ..++.|+|.+|+||||+|.+++........    -..++|++....++..++.. +++.++.+..         ......
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHH
Confidence            468999999999999999999977532210    24789999988877776653 4556654321         111112


Q ss_pred             ---HHHHHHHHHHhc-CCeEEEEEeCCCcc
Q 038494          247 ---HRAKQLCQRLTK-EKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ---~~~~~l~~~l~~-~k~~LlvlDdv~~~  272 (1209)
                         .....+...+.+ .+.-+||+|.+...
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l  215 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTSH  215 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTHH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHHH
Confidence               123344444544 56789999998654

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.55  E-value=0.03  Score=61.79  Aligned_cols=92  Identities=14%  Similarity=0.193  Sum_probs=59.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc---------cC-----CEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK---------VF-----DKVVMAEVTENPDVQKIQDKLASDLDLNFD-----  240 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~---------~f-----~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----  240 (1209)
                      ..++.|+|.+|+|||++|.+++.......         ..     ..++|++....++..++.+ +++.++.+..     
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            46899999999999999999997642110         11     4789999988877776664 4555654321     


Q ss_pred             ----CCCChH---HHHHHHHHHHhc-CCeEEEEEeCCCcc
Q 038494          241 ----LNDSKP---HRAKQLCQRLTK-EKRVLIILDNIWKK  272 (1209)
Q Consensus       241 ----~~~~~~---~~~~~l~~~l~~-~k~~LlvlDdv~~~  272 (1209)
                          .....+   .....+...+.+ .+.-+||+|.+...
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l  216 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTST  216 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHHH
Confidence                111112   123344455544 45679999998643

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.55  E-value=0.015  Score=72.79  Aligned_cols=102  Identities=18%  Similarity=0.191  Sum_probs=58.5

Q ss_pred             chhhHHHHHHHHHHHHhC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.+..++.+...+..         .....+.++|++|+|||++|+.+++...     ...+.++++.-.....    
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~~----  529 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----  529 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC----
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchhh----
Confidence            467888888888777652         1224789999999999999999998773     2344555544221100    


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.+.++.+..  -........+...+......+|+||+++..
T Consensus       530 ~~~l~g~~~g--~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~  569 (758)
T 1r6b_X          530 VSRLIGAPPG--YVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_dssp             CSSSCCCCSC--SHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             HhhhcCCCCC--CcCccccchHHHHHHhCCCcEEEEeCcccc
Confidence            0001111100  000111122334444345689999999865

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=95.44  E-value=0.052  Score=60.34  Aligned_cols=85  Identities=21%  Similarity=0.204  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----CCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-----LNDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  254 (1209)
                      ..++.|.|.+|+||||||.+++......  -..++|++....++..     .++.++.+..     .... .+.+....+
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~--g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~-~e~~l~~l~  145 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDN-GEQALEIME  145 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSS-HHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHC--CCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCc-HHHHHHHHH
Confidence            4689999999999999999998876543  2468999998776654     2455554322     1122 233333333


Q ss_pred             HHh-cCCeEEEEEeCCCcc
Q 038494          255 RLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .+. ....-+||+|.+...
T Consensus       146 ~l~~~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          146 LLVRSGAIDVVVVDSVAAL  164 (366)
T ss_dssp             HHHTTTCCSEEEEECTTTC
T ss_pred             HHHhcCCCCEEEEeChHHh
Confidence            343 345569999998654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.43  E-value=0.013  Score=56.10  Aligned_cols=40  Identities=23%  Similarity=0.276  Sum_probs=30.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ....+.|+|..|+|||||++.++...... .+ .++++...+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHH
Confidence            45689999999999999999999887642 11 256666544

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.40  E-value=0.052  Score=60.15  Aligned_cols=85  Identities=18%  Similarity=0.212  Sum_probs=55.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      ..++.|+|.+|+||||||.+++......  =..++|++....++..     .++.++.....     ... .+....+..
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~--g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~-~e~~l~~~~  132 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAA--GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDT-GEQALEIAD  132 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSS-HHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCC-HHHHHHHHH
Confidence            4689999999999999999999776543  2468899988776653     25556544221     122 233333333


Q ss_pred             HHh-cCCeEEEEEeCCCcc
Q 038494          255 RLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .+. +.+.-+||+|.+...
T Consensus       133 ~l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHHTTTCCSEEEEECGGGC
T ss_pred             HHHhcCCCCEEEEcChHhh
Confidence            333 345679999998654

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=95.30  E-value=0.093  Score=58.41  Aligned_cols=166  Identities=10%  Similarity=-0.018  Sum_probs=98.4

Q ss_pred             HHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHH
Q 038494          173 EALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL  252 (1209)
Q Consensus       173 ~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l  252 (1209)
                      +.+...-.++..++|..|.||++.+..+.+..... .|+....+.+....++.++...+..                   
T Consensus        11 ~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~-------------------   70 (343)
T 1jr3_D           11 AQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSIDPNTDWNAIFSLCQA-------------------   70 (343)
T ss_dssp             HHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECCTTCCHHHHHHHHHH-------------------
T ss_pred             HHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEecCCCCHHHHHHHhcC-------------------
Confidence            33333445789999999999999999999876542 2432222233333344333222111                   


Q ss_pred             HHHHhcCCeEEEEEeCCCc-c--cCccccCCCCCCCCccccccccCCcEEEEeccc-------hhhhcccCCcceEEEcC
Q 038494          253 CQRLTKEKRVLIILDNIWK-K--LGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRS-------KHLLTNDMNSQKIFLIE  322 (1209)
Q Consensus       253 ~~~l~~~k~~LlvlDdv~~-~--~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~-------~~v~~~~~~~~~~~~l~  322 (1209)
                       .-+ -+.+-++|+|+++. .  ..++.+...+....        +++.+|++|..       ..+.........+++..
T Consensus        71 -~pl-f~~~kvvii~~~~~kl~~~~~~aLl~~le~p~--------~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~  140 (343)
T 1jr3_D           71 -MSL-FASRQTLLLLLPENGPNAAINEQLLTLTGLLH--------DDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQ  140 (343)
T ss_dssp             -HHH-CCSCEEEEEECCSSCCCTTHHHHHHHHHTTCB--------TTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEEC
T ss_pred             -cCC-ccCCeEEEEECCCCCCChHHHHHHHHHHhcCC--------CCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEee
Confidence             112 24567889999876 3  33444433222212        46667766543       12332223455789999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHH
Q 038494          323 VLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVAN  369 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~  369 (1209)
                      +++.++....+.+.+.... ..-..+.+..|++.++|...++...-.
T Consensus       141 ~l~~~~l~~~l~~~~~~~g-~~i~~~a~~~l~~~~~gdl~~~~~ele  186 (343)
T 1jr3_D          141 TPEQAQLPRWVAARAKQLN-LELDDAANQVLCYCYEGNLLALAQALE  186 (343)
T ss_dssp             CCCTTHHHHHHHHHHHHTT-CEECHHHHHHHHHSSTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhchHHHHHHHHHH
Confidence            9999999988887764222 112346778899999998887765433

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.30  E-value=0.52  Score=53.30  Aligned_cols=29  Identities=34%  Similarity=0.476  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ...+|.++|.+|+||||++..++.....+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            35799999999999999999999877653

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=95.12  E-value=0.46  Score=53.77  Aligned_cols=89  Identities=24%  Similarity=0.187  Sum_probs=47.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~~  255 (1209)
                      ..+|.++|.+|+||||++..++.....+.  ..+..++... .....+-+....+..+.+...   ..+...........
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~G--~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~  174 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRG--YKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDI  174 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHH
Confidence            57999999999999999999998876532  2344444332 112233334444444443221   11222223333333


Q ss_pred             HhcCCeEEEEEeCCC
Q 038494          256 LTKEKRVLIILDNIW  270 (1209)
Q Consensus       256 l~~~k~~LlvlDdv~  270 (1209)
                      +.....-++|+|-..
T Consensus       175 a~~~~~DvvIIDTaG  189 (433)
T 3kl4_A          175 FVKNKMDIIIVDTAG  189 (433)
T ss_dssp             TTTTTCSEEEEEECC
T ss_pred             HHhcCCCEEEEECCC
Confidence            332233455677553

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=95.12  E-value=0.058  Score=59.78  Aligned_cols=85  Identities=21%  Similarity=0.294  Sum_probs=55.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      ..++.|.|.+|+||||||.+++......  -..++|++....++..     .++.++.....     ... .+....+.+
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~--g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~-~e~~~~~~~  134 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDT-GEQALEICD  134 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSS-HHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCC-HHHHHHHHH
Confidence            4689999999999999999999876543  2368999998777643     24555543211     112 233333334


Q ss_pred             HHh-cCCeEEEEEeCCCcc
Q 038494          255 RLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .+. +.+.-+||+|.+...
T Consensus       135 ~l~~~~~~~lVVIDsl~~l  153 (356)
T 1u94_A          135 ALARSGAVDVIVVDSVAAL  153 (356)
T ss_dssp             HHHHHTCCSEEEEECGGGC
T ss_pred             HHHhccCCCEEEEcCHHHh
Confidence            332 345568999998644

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.12  E-value=0.87  Score=51.76  Aligned_cols=90  Identities=19%  Similarity=0.252  Sum_probs=48.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC-cCHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN-PDVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQ  254 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~-~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~  254 (1209)
                      ..++|.++|.+|+||||+|..++.....+.. ..+.-+++... ....+.+.......+.+...   ..+..........
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G-~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~  177 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHK-KKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK  177 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSC-CCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcC-CeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHH
Confidence            3579999999999999999999988875412 24455555432 22333333334444433211   1222333344455


Q ss_pred             HHhcCCeEEEEEeCC
Q 038494          255 RLTKEKRVLIILDNI  269 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv  269 (1209)
                      .+....--++|+|-.
T Consensus       178 ~~~~~~~D~VIIDTp  192 (433)
T 2xxa_A          178 EAKLKFYDVLLVDTA  192 (433)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEECC
Confidence            554212235666764

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=95.05  E-value=0.03  Score=70.71  Aligned_cols=60  Identities=23%  Similarity=0.391  Sum_probs=42.9

Q ss_pred             cchhhHHHHHHHHHHHHhCC---------CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          159 EAFDSRMKLFQDVVEALRND---------KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ..++|.+..++.+...+...         ....+.|+|++|+|||++|+.+++......  ...+.++++.
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~--~~~i~i~~~~  626 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTE  626 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG--GGEEEECTTT
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--CcEEEEechh
Confidence            35789999888888877521         125789999999999999999998874321  1234455543

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=94.90  E-value=0.084  Score=59.43  Aligned_cols=92  Identities=15%  Similarity=0.131  Sum_probs=57.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCChH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSKP  246 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~~  246 (1209)
                      ..++.|+|.+|+|||||+..++-......    .-..++|++....+....+ +.+++.++....         ......
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            46999999999999999998874433211    2356899988776665554 346666664321         111111


Q ss_pred             ---HHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          247 ---HRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ---~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                         .....+...+...+.-+||+|.+...
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t~~  285 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVMAL  285 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGGGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchhhh
Confidence               22233444444457789999987543

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.86  E-value=0.058  Score=59.05  Aligned_cols=97  Identities=20%  Similarity=0.264  Sum_probs=54.6

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcC-HHHHHHHHHHHhCCC---CCCCCC
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPD-VQKIQDKLASDLDLN---FDLNDS  244 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~-~~~l~~~i~~~l~~~---~~~~~~  244 (1209)
                      .++.+. -.....++|+|.+|+|||||++.+++....+ +-+ .++++-+.+... +.+    +.+.+...   ......
T Consensus       164 aID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~-~~~v~~I~~lIGER~~Ev~~----~~~~~~~~vV~atadep  238 (422)
T 3ice_A          164 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERPEEVTE----MQRLVKGEVVASTFDEP  238 (422)
T ss_dssp             HHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHH-CTTSEEEEEEESSCHHHHHH----HHTTCSSEEEEECTTSC
T ss_pred             eeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhc-CCCeeEEEEEecCChHHHHH----HHHHhCeEEEEeCCCCC
Confidence            344443 2345689999999999999999998876542 222 244577776542 222    22333110   011111


Q ss_pred             hHHHH------HHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          245 KPHRA------KQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 ~~~~~------~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .....      -.+-+++. +++.+||++||+...
T Consensus       239 ~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~  273 (422)
T 3ice_A          239 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRL  273 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHH
Confidence            11111      12233343 479999999998765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.74  E-value=0.1  Score=54.26  Aligned_cols=47  Identities=21%  Similarity=0.249  Sum_probs=33.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      ..++.|+|.+|+|||||++.++......  -..++|+....  ....+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHH
Confidence            3689999999999999999999766532  23567776544  34444333

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=94.72  E-value=0.0065  Score=57.87  Aligned_cols=45  Identities=11%  Similarity=0.074  Sum_probs=32.3

Q ss_pred             chhhHHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|+...++++.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            467888888887777652  223457799999999999999987643

>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=94.52  E-value=0.15  Score=57.77  Aligned_cols=123  Identities=17%  Similarity=0.149  Sum_probs=73.2

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCC
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLE  615 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~  615 (1209)
                      .+.+++.+.+..+   ...+....|.++..|+.+.+..+ ++.+.. .+.++.+|+.+.+..+ ++.+  ..+.++.+|+
T Consensus       215 ~~~~l~~i~~~~~---~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~  289 (379)
T 4h09_A          215 YGKNLKKITITSG---VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLT  289 (379)
T ss_dssp             TCSSCSEEECCTT---CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCC
T ss_pred             cccccceeeeccc---eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccc
Confidence            4555666555432   34455555666777777777654 444433 4566667777766533 4444  4566677777


Q ss_pred             EEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          616 ILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       616 ~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      .+.+.++.++.++. .+.++.+|+.+.+..  .++.+....+.++.+|+.+.+.
T Consensus       290 ~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          290 KVVMDNSAIETLEPRVFMDCVKLSSVTLPT--ALKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             EEEECCTTCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCCCCCC
T ss_pred             cccccccccceehhhhhcCCCCCCEEEcCc--cccEEHHHHhhCCCCCCEEEEC
Confidence            77776666666543 366667777777653  3555555556666777666653

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=94.50  E-value=0.22  Score=56.39  Aligned_cols=101  Identities=25%  Similarity=0.345  Sum_probs=64.4

Q ss_pred             HHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC----------
Q 038494          171 VVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN----------  238 (1209)
Q Consensus       171 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~----------  238 (1209)
                      .++.+.. .+...+.|+|.+|+|||+|+..+++.... .+-+.++++-+.+.. .+.++++.+...-...          
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvv  221 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVAL  221 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEE
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEE
Confidence            4444442 34468899999999999999999988643 334667788888765 4566777776542221          


Q ss_pred             --CCCCCCh------HHHHHHHHHHHhc--CCeEEEEEeCCCcc
Q 038494          239 --FDLNDSK------PHRAKQLCQRLTK--EKRVLIILDNIWKK  272 (1209)
Q Consensus       239 --~~~~~~~------~~~~~~l~~~l~~--~k~~LlvlDdv~~~  272 (1209)
                        ...+...      ....-.+-+++..  ++.+||++||+...
T Consensus       222 V~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~  265 (482)
T 2ck3_D          222 VYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  265 (482)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence              0111111      1122345555653  79999999998754

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.44  E-value=0.041  Score=55.80  Aligned_cols=44  Identities=20%  Similarity=0.339  Sum_probs=35.3

Q ss_pred             hHHHHHHHHHHHHhC---CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          163 SRMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|++.++.+.+.+..   ....+|+|.|..|.||||+++.+......
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            366677888887763   34579999999999999999999887653

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.42  E-value=0.11  Score=58.89  Aligned_cols=91  Identities=19%  Similarity=0.306  Sum_probs=54.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCC-------CCCCCCChHHH----
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDL-------NFDLNDSKPHR----  248 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~-------~~~~~~~~~~~----  248 (1209)
                      ..+.|+|.+|+|||||+..++.....+. -+.++++.+.+.. ...++++.+...-..       ....++.....    
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~-~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH-GGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT-CCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc-CcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            4689999999999999999998876432 2345666666654 455555555432100       00111111111    


Q ss_pred             -HHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          249 -AKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       249 -~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                       .-.+.+++.  ++++.||++||+..-
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~itR~  257 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNIFRF  257 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECTHHH
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence             123445554  389999999999654

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.36  E-value=0.12  Score=55.78  Aligned_cols=86  Identities=17%  Similarity=0.191  Sum_probs=48.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLT  257 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  257 (1209)
                      ...+|+|+|.+|+||||++..++.....+.. ..+..+.... .....+.++...+..+.+...... ..........+.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G-~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~-~~~l~~al~~~~  181 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH-KKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYT-KEEFQQAKELFS  181 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC-CCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSS-HHHHHHHHHHGG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CEEEEEecCcccchHHHHHHHHHHhcCCCeEecCC-HHHHHHHHHHhc
Confidence            3469999999999999999999988764211 2455555433 223333444444444444322222 222333333332


Q ss_pred             cCCeEEEEEeC
Q 038494          258 KEKRVLIILDN  268 (1209)
Q Consensus       258 ~~k~~LlvlDd  268 (1209)
                        +.-++|+|-
T Consensus       182 --~~dlvIiDT  190 (296)
T 2px0_A          182 --EYDHVFVDT  190 (296)
T ss_dssp             --GSSEEEEEC
T ss_pred             --CCCEEEEeC
Confidence              345788884

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.30  E-value=0.17  Score=55.27  Aligned_cols=52  Identities=17%  Similarity=0.241  Sum_probs=38.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ...++.|.|.+|+||||+|.+++.....+.  ..++|++..  .+..++...+...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            346899999999999999999998776542  578888765  4455666555543

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=94.19  E-value=0.15  Score=52.76  Aligned_cols=92  Identities=20%  Similarity=0.195  Sum_probs=53.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCCh-
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSK-  245 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~-  245 (1209)
                      ..+++|+|++|+|||||++.++.......    .-..++|+.......... ...+.+..+....         ..... 
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNSN  103 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTSCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCCCHHHHhhcEEEEecCChH
Confidence            46999999999999999999987543311    134688888765444333 2334444433211         00111 


Q ss_pred             --HHHHHHHHHHHh-----cCCeEEEEEeCCCcc
Q 038494          246 --PHRAKQLCQRLT-----KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 --~~~~~~l~~~l~-----~~k~~LlvlDdv~~~  272 (1209)
                        ......+...+.     ..++-+||+|.....
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~  137 (231)
T 4a74_A          104 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  137 (231)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCceeEEEECChHHH
Confidence              111233333343     457789999987653

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.05  E-value=0.027  Score=60.16  Aligned_cols=61  Identities=11%  Similarity=0.132  Sum_probs=39.2

Q ss_pred             ccchhhHHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          158 FEAFDSRMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ...|+|+...+..+.+.+..  .....|.|+|.+|+|||++|+.+++......  ...+.++++.
T Consensus         5 f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~--~~~~~v~~~~   67 (265)
T 2bjv_A            5 KDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQ--GPFISLNCAA   67 (265)
T ss_dssp             -----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTTT--SCEEEEEGGG
T ss_pred             cccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCccC--CCeEEEecCC
Confidence            34678888888887776652  2235678999999999999999987654221  1234566554

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=93.82  E-value=0.08  Score=64.78  Aligned_cols=96  Identities=15%  Similarity=0.244  Sum_probs=62.3

Q ss_pred             ccccchhhHHHHHHHHHHHHhC-------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          156 KDFEAFDSRMKLFQDVVEALRN-------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ..+..+.|-++.++.|.+.+.-             ...+-|.++|++|+|||.+|+++++.....       ++.++.  
T Consensus       474 v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~~--  544 (806)
T 3cf2_A          474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIKG--  544 (806)
T ss_dssp             CCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECCH--
T ss_pred             CCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEecc--
Confidence            3355666777777777665541             123457899999999999999999887642       233321  


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          223 DVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       223 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                        .+    ++.   ....   ..+..++.+.+.-++..+.+|++|+++..
T Consensus       545 --~~----l~s---~~vG---ese~~vr~lF~~Ar~~~P~IifiDEiDsl  582 (806)
T 3cf2_A          545 --PE----LLT---MWFG---ESEANVREIFDKARQAAPCVLFFDELDSI  582 (806)
T ss_dssp             --HH----HHT---TTCS---SCHHHHHHHHHHHHTTCSEEEECSCGGGC
T ss_pred             --ch----hhc---cccc---hHHHHHHHHHHHHHHcCCceeechhhhHH
Confidence              11    111   1111   11566777877777678999999999864

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=93.73  E-value=0.061  Score=54.91  Aligned_cols=52  Identities=23%  Similarity=0.321  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC
Q 038494          166 KLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT  219 (1209)
Q Consensus       166 ~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s  219 (1209)
                      +.+++|.+.+..  ....+|+|+|..|.|||||++.++.......  ..+.++...
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~~g--~~~g~v~~d   59 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSAQG--LPAEVVPMD   59 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHHHTT--CCEEEEESG
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHhhcC--CceEEEecC
Confidence            445566666553  4567999999999999999999988776421  124455543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=93.62  E-value=0.03  Score=62.74  Aligned_cols=49  Identities=20%  Similarity=0.237  Sum_probs=36.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ....++|.+..+..+..........-+.|+|.+|+|||++|+.+++...
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3567889887666655444433334588999999999999999998764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.51  E-value=0.37  Score=52.67  Aligned_cols=50  Identities=14%  Similarity=0.189  Sum_probs=37.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..++.|.|.+|+||||+|..++......  =..++|++..  .+..++...++.
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEESS--SCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCC--CCHHHHHHHHHH
Confidence            4689999999999999999999887652  2467777664  445666665544

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=93.45  E-value=0.043  Score=54.40  Aligned_cols=25  Identities=20%  Similarity=0.356  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|.|.|++|+||||+|+.+++...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999988754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.38  E-value=0.3  Score=51.14  Aligned_cols=40  Identities=20%  Similarity=0.233  Sum_probs=30.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ..++.|.|.+|+||||+|.+++......  -..++|++....
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~--~~~v~~~~~e~~   62 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALEEH   62 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEESSSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccCC
Confidence            4589999999999999999988766532  246788876543

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=93.38  E-value=0.39  Score=51.71  Aligned_cols=89  Identities=20%  Similarity=0.145  Sum_probs=52.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCCCCC---CCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLNFDL---NDSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~l~~~  255 (1209)
                      ..+++++|.+|+||||++..++......  -..+.+++..... ...+.++...+..+.+...   ..+..+......+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~--g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~  175 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKK--GFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHT--TCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999887643  2356666654322 2233344455555543211   12334444455555


Q ss_pred             HhcCCeEEEEEeCCC
Q 038494          256 LTKEKRVLIILDNIW  270 (1209)
Q Consensus       256 l~~~k~~LlvlDdv~  270 (1209)
                      +....--++|+|-.-
T Consensus       176 ~~~~~~D~ViIDTpg  190 (297)
T 1j8m_F          176 FLSEKMEIIIVDTAG  190 (297)
T ss_dssp             HHHTTCSEEEEECCC
T ss_pred             HHhCCCCEEEEeCCC
Confidence            542232367788753

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=93.37  E-value=0.26  Score=53.10  Aligned_cols=88  Identities=17%  Similarity=0.182  Sum_probs=50.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC-HHHHHHHHHHHhCCCCC---CCCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD-VQKIQDKLASDLDLNFD---LNDSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~l~~~i~~~l~~~~~---~~~~~~~~~~~l~~~  255 (1209)
                      ..+++|+|.+|+||||++..++......  -..+.++....... ....+..+.+..+.+..   ......+..+.....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~--~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~  175 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK--GRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEK  175 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHT--TCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999887643  23456665533221 11223344555554332   122323343444444


Q ss_pred             HhcCCeEEEEEeCC
Q 038494          256 LTKEKRVLIILDNI  269 (1209)
Q Consensus       256 l~~~k~~LlvlDdv  269 (1209)
                      +.....=+||+|--
T Consensus       176 ~~~~~~D~viiDtp  189 (295)
T 1ls1_A          176 ARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHTCCEEEEECC
T ss_pred             HHhCCCCEEEEeCC
Confidence            43123457788875

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=93.30  E-value=0.5  Score=50.65  Aligned_cols=55  Identities=24%  Similarity=0.097  Sum_probs=35.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcc-cCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-VFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ....+|+|+|..|+||||+|+.+........ ....+..|+...-+-.......+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l~   84 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLN   84 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHHh
Confidence            3457999999999999999999988775421 122344445554333334444443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=93.26  E-value=0.051  Score=53.49  Aligned_cols=25  Identities=20%  Similarity=0.288  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|.|++|+||||+|+.++....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987764

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=93.24  E-value=0.23  Score=55.00  Aligned_cols=93  Identities=20%  Similarity=0.201  Sum_probs=54.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccC----CEEEEEEcCCCcCHHHHHHHHHHHhCCCCC---------CCCCh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF----DKVVMAEVTENPDVQKIQDKLASDLDLNFD---------LNDSK  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~---------~~~~~  245 (1209)
                      ...++.|+|.+|+|||||+..++.........    +.++|++....+...++ ..+++..+....         .....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~~  208 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            34799999999999999999999775311111    35689988766544433 334554433210         00111


Q ss_pred             ---HHHHHHHHHHHhc-----CCeEEEEEeCCCcc
Q 038494          246 ---PHRAKQLCQRLTK-----EKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ---~~~~~~l~~~l~~-----~k~~LlvlDdv~~~  272 (1209)
                         ...+..+...+.+     .+.-+||+|.+...
T Consensus       209 ~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          209 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence               1122223333332     46789999998654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=93.08  E-value=0.058  Score=54.61  Aligned_cols=26  Identities=38%  Similarity=0.434  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|+|++|+||||+|+.++....
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=93.00  E-value=0.053  Score=60.10  Aligned_cols=45  Identities=18%  Similarity=0.244  Sum_probs=37.3

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..++|+++.++.+...+..+  ..+.++|.+|+|||++|+.+++...
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            35789988888888877654  3678999999999999999988764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.97  E-value=0.1  Score=54.08  Aligned_cols=42  Identities=19%  Similarity=0.298  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          165 MKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       165 ~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ++..+.+.+.+.......|+|+|.+|+|||||+..+......
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            344455555555566789999999999999999999987643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=92.85  E-value=0.063  Score=53.57  Aligned_cols=26  Identities=38%  Similarity=0.442  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+.|.|+|++|+||||+|+.+++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999988764

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=92.84  E-value=0.22  Score=53.73  Aligned_cols=88  Identities=18%  Similarity=0.205  Sum_probs=49.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH--HHHHHHHHHHhCCCCCC---CCChHHH-HHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV--QKIQDKLASDLDLNFDL---NDSKPHR-AKQL  252 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~--~~l~~~i~~~l~~~~~~---~~~~~~~-~~~l  252 (1209)
                      ...+|+|+|.+|+||||++..++......  -..+.++... .+..  .+-++..++..+.+...   ..+.... ...+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~--g~kV~lv~~D-~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al  179 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE--GKSVVLAAAD-TFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV  179 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEEC-TTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc--CCEEEEEccc-cccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            34699999999999999999999887653  2345556543 2222  22233455555543211   1121222 1233


Q ss_pred             HHHHhcCCeEEEEEeCCC
Q 038494          253 CQRLTKEKRVLIILDNIW  270 (1209)
Q Consensus       253 ~~~l~~~k~~LlvlDdv~  270 (1209)
                      ...+.. ..-++|+|-.-
T Consensus       180 ~~a~~~-~~dvvIiDtpg  196 (306)
T 1vma_A          180 AHALAR-NKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHT-TCSEEEEEECC
T ss_pred             HHHHhc-CCCEEEEECCC
Confidence            333443 44478888653

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=92.83  E-value=0.3  Score=55.49  Aligned_cols=101  Identities=24%  Similarity=0.340  Sum_probs=65.4

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC-------C--
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN-------F--  239 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~-------~--  239 (1209)
                      .++.+. =.+...++|+|.+|+|||+|+..+++.... .+-+.++++-+.+.. ...++++.+...-...       .  
T Consensus       155 vID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtv  233 (498)
T 1fx0_B          155 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            344444 234467899999999999999999988643 335677888888765 4667777776542221       0  


Q ss_pred             ----CCCCC------hHHHHHHHHHHHhc--CCeEEEEEeCCCcc
Q 038494          240 ----DLNDS------KPHRAKQLCQRLTK--EKRVLIILDNIWKK  272 (1209)
Q Consensus       240 ----~~~~~------~~~~~~~l~~~l~~--~k~~LlvlDdv~~~  272 (1209)
                          .....      .....-.+-+++..  ++.+|+++||+...
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~  278 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRF  278 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence                00111      12223345666664  79999999998654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=92.82  E-value=0.057  Score=58.74  Aligned_cols=45  Identities=13%  Similarity=0.203  Sum_probs=35.6

Q ss_pred             chhhHHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|+...+.++.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            467888888888777652  334567899999999999999998865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=92.77  E-value=0.44  Score=51.65  Aligned_cols=60  Identities=17%  Similarity=0.163  Sum_probs=38.1

Q ss_pred             hhhHHHHHHHHHHHHhC----CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          161 FDSRMKLFQDVVEALRN----DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       161 ~~gR~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ++|....+..+...+..    ....+|+|.|..|+||||+|+.+.........-..+..+....
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~  132 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDG  132 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             hhcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecc
Confidence            44555555555554442    2345899999999999999999987765211112355555544

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=92.71  E-value=0.14  Score=55.90  Aligned_cols=44  Identities=25%  Similarity=0.382  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHHHh----CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          163 SRMKLFQDVVEALR----NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       163 gR~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +-+...+.+++.+.    .+....|.|+|+.|+||||+++.++.....
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            33444555555543    455667999999999999999999887653

>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=92.70  E-value=0.35  Score=54.53  Aligned_cols=115  Identities=15%  Similarity=0.206  Sum_probs=89.8

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCC
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLE  615 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~  615 (1209)
                      .+.+|+.+.+..+   ...+....|.++..|..+.+..+ +..++. .+..+.+|+.+.+.++.++.+  ..|.++.+|+
T Consensus       238 ~~~~L~~i~lp~~---v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~  313 (379)
T 4h09_A          238 GMKALDEIAIPKN---VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLS  313 (379)
T ss_dssp             TCSSCCEEEECTT---CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCC
T ss_pred             CCccceEEEcCCC---ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCC
Confidence            6888999888653   56677788899999999999754 666654 688999999999999888888  7789999999


Q ss_pred             EEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCC
Q 038494          616 ILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFS  660 (1209)
Q Consensus       616 ~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~  660 (1209)
                      .+.+.. .++.++. .+.++.+|+.+.+..  .++.+....+.++.
T Consensus       314 ~i~lp~-~l~~I~~~aF~~C~~L~~i~ip~--~v~~I~~~aF~~c~  356 (379)
T 4h09_A          314 SVTLPT-ALKTIQVYAFKNCKALSTISYPK--SITLIESGAFEGSS  356 (379)
T ss_dssp             EEECCT-TCCEECTTTTTTCTTCCCCCCCT--TCCEECTTTTTTSS
T ss_pred             EEEcCc-cccEEHHHHhhCCCCCCEEEECC--ccCEEchhHhhCCC
Confidence            999975 4776754 578889999888864  36666555565553

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=92.67  E-value=0.085  Score=53.40  Aligned_cols=29  Identities=31%  Similarity=0.474  Sum_probs=25.5

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .....+|+|+|++|.||||+|+.++....
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34567999999999999999999998875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=92.58  E-value=0.076  Score=53.02  Aligned_cols=28  Identities=29%  Similarity=0.459  Sum_probs=24.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+|.|.|++|+||||+++.++.....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            4568999999999999999999988764

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=92.50  E-value=0.067  Score=52.81  Aligned_cols=20  Identities=35%  Similarity=0.649  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~  200 (1209)
                      .+|+|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=92.49  E-value=0.049  Score=63.26  Aligned_cols=44  Identities=11%  Similarity=0.141  Sum_probs=36.3

Q ss_pred             chhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|+++.++.+...+..+  .-|.|+|++|+|||++|+.+++...
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHh
Confidence            5778888888888777654  3688999999999999999988664

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.49  E-value=0.21  Score=52.51  Aligned_cols=49  Identities=20%  Similarity=0.253  Sum_probs=32.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ..++.|.|.+|+|||++|.+++.....+. -..+++++...  +..++.+.+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~~~~~-~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCceeecccC--CHHHHHHHH
Confidence            46899999999999999999876543221 23566666544  344444443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.49  E-value=0.28  Score=65.67  Aligned_cols=86  Identities=17%  Similarity=0.158  Sum_probs=58.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLC  253 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~  253 (1209)
                      ..+.|.|+|++|+|||+||.+++.....+  =..++|+++.+.++...     ++.++.+.+.     ....+...+.+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~--G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            35689999999999999999999876643  24678898888777665     4555533221     112233334444


Q ss_pred             HHHhcCCeEEEEEeCCCc
Q 038494          254 QRLTKEKRVLIILDNIWK  271 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~  271 (1209)
                      ....+.+.-+||+|.+..
T Consensus      1499 ~lvr~~~~~lVVIDsi~a 1516 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVAA 1516 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGG
T ss_pred             HHHhcCCCCEEEEcChhH
Confidence            444456788999999853

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=92.44  E-value=0.18  Score=46.74  Aligned_cols=51  Identities=14%  Similarity=0.197  Sum_probs=25.5

Q ss_pred             EEEecCcccc--cccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCC
Q 038494          571 VLSLSGIHFS--SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSD  623 (1209)
Q Consensus       571 ~L~L~~~~i~--~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~  623 (1209)
                      +++.+++.++  .+|..+.  .+|++|+|++|.++.+  ..|..+.+|++|+|++|.
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            4555555555  5554322  2455555555555554  334445555555555543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=92.44  E-value=0.072  Score=52.83  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      .+|.|.|++|+||||+|+.+++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4789999999999999999987

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=92.37  E-value=0.082  Score=53.50  Aligned_cols=27  Identities=30%  Similarity=0.495  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+|+|+|+.|.||||+++.++...
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999998765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.37  E-value=0.11  Score=53.54  Aligned_cols=43  Identities=26%  Similarity=0.359  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          163 SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.++....+.+.+.....++|+|+|.+|+|||||+..+.....
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           13 ENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3344455555555455678999999999999999999988764

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=92.30  E-value=0.076  Score=53.26  Aligned_cols=25  Identities=32%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...+|+|+|++|.||||+++.++..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3468999999999999999999764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=92.27  E-value=0.085  Score=52.34  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35899999999999999999987653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=92.25  E-value=0.066  Score=52.68  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|+|+.|+||||+++.++....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999987754

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=92.25  E-value=1  Score=49.11  Aligned_cols=58  Identities=22%  Similarity=0.273  Sum_probs=38.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDL  237 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~  237 (1209)
                      .+..+++|+|+.|+||||+++.++...+..  -..+.++...- .....+-++...+.++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~--~g~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH--GFSVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCEEEEEeecccccchHHHHHHHHHHcCc
Confidence            446799999999999999999999877653  22445554332 12344445555666664

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=92.23  E-value=0.084  Score=53.02  Aligned_cols=26  Identities=31%  Similarity=0.470  Sum_probs=23.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+|.|.|++|+||||+|+.+++....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999988763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=92.12  E-value=1.1  Score=51.78  Aligned_cols=28  Identities=36%  Similarity=0.428  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..++|+|+|.+|+||||++..++.....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3568999999999999999999987764

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=92.09  E-value=0.081  Score=52.49  Aligned_cols=26  Identities=46%  Similarity=0.494  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.|.|++|+||||+|+.+++...
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999987763

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=92.08  E-value=0.098  Score=52.51  Aligned_cols=26  Identities=35%  Similarity=0.392  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|.|++|+||||+|+.++....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999987663

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=92.03  E-value=0.085  Score=53.94  Aligned_cols=113  Identities=13%  Similarity=0.016  Sum_probs=60.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC--CChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN--DSKPHRAKQLCQRL  256 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~--~~~~~~~~~l~~~l  256 (1209)
                      ...++.|+|..|.||||++..++++...+.  ..++.+.......   ...+++++++......  ....+..+.+.+.+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g--~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYAD--VKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTT--CCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcC--CEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            356889999999999999999998886542  2334443332211   1224455555432211  11122222232222


Q ss_pred             hcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          257 TKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       257 ~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      .+++.-+||+|.+....  .++.+.. +         . ..|..||+|-+..+
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l~~-L---------~-~~gi~Vil~Gl~~d  127 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVANI-L---------A-ENGFVVIISGLDKN  127 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHHHH-H---------H-HTTCEEEEECCSBC
T ss_pred             hCCCCCEEEEecCccCcHHHHHHHHH-H---------H-hCCCeEEEEecccc
Confidence            22345699999997531  2222211 0         0 13667888888654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=91.95  E-value=0.077  Score=53.82  Aligned_cols=25  Identities=32%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|+|.|+.|+||||+|+.++...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998876

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=91.92  E-value=0.094  Score=52.56  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|.|.|++|+||||+|+.+++...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999998765

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=91.87  E-value=0.11  Score=58.28  Aligned_cols=46  Identities=20%  Similarity=0.094  Sum_probs=36.3

Q ss_pred             chhhHHHHHHHHHHHHh-------------C--CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALR-------------N--DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~-------------~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.+..++.+..++.             .  .....|.++|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            35788888888887772             1  1235689999999999999999998763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=91.79  E-value=0.1  Score=55.06  Aligned_cols=25  Identities=28%  Similarity=0.216  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|.|.|++|+||||+|+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999988764

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=91.74  E-value=0.86  Score=51.46  Aligned_cols=87  Identities=17%  Similarity=0.183  Sum_probs=48.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHH--HHHHHHHHhCCCCCC---CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQK--IQDKLASDLDLNFDL---NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~--l~~~i~~~l~~~~~~---~~~~~~~~~~l~~  254 (1209)
                      ..+|+|+|.+|+||||++..++.....+  -..+..+.. +.+....  .++...+..+.+...   ..+..+......+
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~--g~~Vllvd~-D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~  174 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK--GRRPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEeec-cccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999887653  234555554 3333322  234444555443211   1222333344445


Q ss_pred             HHhcCCeEEEEEeCC
Q 038494          255 RLTKEKRVLIILDNI  269 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv  269 (1209)
                      .+....--++|+|-.
T Consensus       175 ~~~~~~~DvVIIDTa  189 (425)
T 2ffh_A          175 KARLEARDLILVDTA  189 (425)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHHCCCCEEEEcCC
Confidence            543112225666754

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=91.73  E-value=0.11  Score=51.71  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ....|.|+|+.|+||||+|+.++..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999876

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=91.71  E-value=0.13  Score=49.94  Aligned_cols=28  Identities=29%  Similarity=0.402  Sum_probs=24.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+++.|.|..|+||||++..+......
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            3578999999999999999999988764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=91.71  E-value=0.088  Score=51.94  Aligned_cols=24  Identities=38%  Similarity=0.482  Sum_probs=21.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.++....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999988764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=91.67  E-value=0.11  Score=50.85  Aligned_cols=26  Identities=19%  Similarity=0.414  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|.|+.|+||||+|+.++....
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988764

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=91.65  E-value=0.13  Score=58.17  Aligned_cols=25  Identities=32%  Similarity=0.398  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+.++|++|+|||++|+.+++...
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998763

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=91.64  E-value=0.12  Score=50.83  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|+|+|+.|.||||+++.++...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=91.56  E-value=0.18  Score=55.19  Aligned_cols=102  Identities=20%  Similarity=0.210  Sum_probs=54.7

Q ss_pred             HHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcC-HHHHHHHHHHHhCCCCCCCCCh-
Q 038494          170 DVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPD-VQKIQDKLASDLDLNFDLNDSK-  245 (1209)
Q Consensus       170 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~-~~~l~~~i~~~l~~~~~~~~~~-  245 (1209)
                      +.++.+.. .+...+.|+|.+|+|||+|+..+++....+ +-+ .++++-+.+... +.++.+.+...+-....+.+.. 
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~-~~dv~~V~~lIGER~~EV~d~~~~~~G~VV~atadep~~~  242 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAEN-HPDTIRIILLIDERPEEVTDIRESTNAIVIAAPFDMPPDK  242 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHH-CTTSEEEEEECSCCHHHHSSSSSSCCSEEEECCTTSCHHH
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhc-CCCeEEEEEEeccCcchHHHHHHHhCCeEEEECCCCCHHH
Confidence            45555552 345688999999999999999999877542 223 235677765431 1111111100000001111110 


Q ss_pred             ----HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          246 ----PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 ----~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                          ....-.+-+++. +++.+||++||+...
T Consensus       243 r~~~a~~altiAEyfrd~G~dVLil~DslTR~  274 (427)
T 3l0o_A          243 QVKVAELTLEMAKRLVEFNYDVVILLDSLTRL  274 (427)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEecccchHH
Confidence                111122334443 479999999998755

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=91.52  E-value=0.11  Score=52.89  Aligned_cols=27  Identities=30%  Similarity=0.348  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+|+|+|+.|+||||+++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            456899999999999999999987653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=91.49  E-value=0.18  Score=54.26  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|.|.|++|+||||+|+.+....
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=91.44  E-value=0.097  Score=53.18  Aligned_cols=25  Identities=36%  Similarity=0.565  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|+|+|++|+||||+++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4689999999999999999998765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=91.42  E-value=0.18  Score=50.06  Aligned_cols=38  Identities=16%  Similarity=0.173  Sum_probs=28.2

Q ss_pred             HHHHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          168 FQDVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       168 ~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+..++.. ++...+.|+|++|+||||+|..+++...
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3444455443 2334799999999999999999998874

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=91.40  E-value=0.097  Score=51.83  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.|.|.|++|+|||||++.+..+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            4688999999999999999977643

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=91.40  E-value=0.11  Score=52.61  Aligned_cols=24  Identities=33%  Similarity=0.553  Sum_probs=22.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|+|.|+.|+||||+|+.+++...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999988765

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=91.35  E-value=0.13  Score=51.87  Aligned_cols=26  Identities=38%  Similarity=0.368  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|.|++|+||||+|+.+++...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987653

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=91.34  E-value=0.24  Score=51.71  Aligned_cols=27  Identities=22%  Similarity=0.099  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .....|.|.|++|+||||+|+.+++..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999998765

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=91.34  E-value=1.4  Score=50.25  Aligned_cols=42  Identities=31%  Similarity=0.400  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD  223 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~  223 (1209)
                      ...+++|+|..|+||||+++.++......   .+.+++...+.+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~---~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ---GKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT---TCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc---CCeEEEecCcccc
Confidence            35699999999999999999999877643   3344454444444

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=91.29  E-value=0.096  Score=52.14  Aligned_cols=25  Identities=28%  Similarity=0.403  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++|.|.|++|+||||+|+.++....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=91.17  E-value=0.15  Score=51.99  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=24.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.++|.|.|++|+||||.|+.+++...
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            467999999999999999999998764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=91.14  E-value=0.65  Score=53.64  Aligned_cols=50  Identities=22%  Similarity=0.287  Sum_probs=36.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..++.|.|.+|+||||+|..++....... -..++|++...  +..++...+.
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~~-g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATKT-NENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHHS-SCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECCC--CHHHHHHHHH
Confidence            46899999999999999999998876531 12577877654  3455555543

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=91.11  E-value=0.14  Score=51.19  Aligned_cols=27  Identities=19%  Similarity=0.302  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..++|+|+|++|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            456899999999999999999987643

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=91.02  E-value=0.15  Score=55.35  Aligned_cols=41  Identities=20%  Similarity=0.307  Sum_probs=31.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ++.++|+|.|-||+||||.|..++.-.....  ..+.-+++..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~G--kkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILG--KRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCC--CeEEEEecCC
Confidence            4578999999999999999999998887542  2466666653

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=91.01  E-value=0.11  Score=50.92  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|.|.|+.|+||||+|+.+++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=91.01  E-value=0.15  Score=51.64  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+|+|.|+.|+||||+|+.+++..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999998764

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=90.96  E-value=0.14  Score=52.07  Aligned_cols=25  Identities=32%  Similarity=0.553  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|+|||||++.++...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4589999999999999999998763

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=90.95  E-value=0.14  Score=50.94  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|+|.|++|+||||+|+.+++...
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999987653

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=90.94  E-value=0.14  Score=51.38  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|.|++|+||||+|+.+++...
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999987653

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=90.90  E-value=0.69  Score=53.22  Aligned_cols=51  Identities=12%  Similarity=0.058  Sum_probs=37.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..++.|.|.+|+||||+|.+++....... -..++|++..  .+..++...++.
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a~~~-g~~vl~~slE--~~~~~l~~R~~~  250 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAALKE-GVGVGIYSLE--MPAAQLTLRMMC  250 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESS--SCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEECC--CCHHHHHHHHHH
Confidence            46899999999999999999998876431 1357777765  345566666543

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=90.90  E-value=0.13  Score=51.35  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      .+++|+|+.|.||||+++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=90.85  E-value=0.16  Score=51.93  Aligned_cols=26  Identities=19%  Similarity=0.369  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..|+|.|++|+||||+|+.+++....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            58999999999999999999988764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=90.81  E-value=0.14  Score=51.73  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|.|++|+||||+|+.+++...
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=90.70  E-value=0.15  Score=53.48  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|+|+.|+||||+++.+++...
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999997764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=90.68  E-value=0.15  Score=51.83  Aligned_cols=25  Identities=36%  Similarity=0.401  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4589999999999999999997765

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=90.64  E-value=0.15  Score=53.94  Aligned_cols=26  Identities=38%  Similarity=0.613  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|.|++|+||||+|+.++....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=90.63  E-value=0.15  Score=52.81  Aligned_cols=25  Identities=36%  Similarity=0.598  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|+|+.|+||||+|+.++....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g   30 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQ   30 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999987653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=90.61  E-value=0.16  Score=49.64  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|+.|+||||+|+.+++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999988764

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=90.61  E-value=0.15  Score=51.56  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      .+..+|+|.|+.|+||||+|+.++..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34578999999999999999999875

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=90.55  E-value=0.18  Score=51.03  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|.|++|+||||+|+.++....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34899999999999999999988764

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=90.48  E-value=0.14  Score=52.00  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      .+|+|+|+.|+||||+++.++.
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999999987

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=90.48  E-value=0.16  Score=50.88  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|.|+.|+||||+|+.+++...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999987653

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=90.39  E-value=0.24  Score=49.24  Aligned_cols=108  Identities=16%  Similarity=0.104  Sum_probs=53.7

Q ss_pred             hcCCCCCcEEEecCc-ccc-----cccccccCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCC-----
Q 038494          563 FEGTEDLKVLSLSGI-HFS-----SLSSSLGHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIK-----  625 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~-~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~-----  625 (1209)
                      +.+-+.|+.|+|+++ .|.     .+-+.+..-..|+.|+|++|.+.+.      ..+..-+.|++|+|++|.+.     
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~  116 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLA  116 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHH
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHH
Confidence            344455666666553 443     2333444455666666666665432      33334456666666666655     


Q ss_pred             ccchhccCCCCCCEEeccCCC--CCcccC----chhhcCCCCCcEEECCCC
Q 038494          626 QLPLEIGQLAQLQLLDLSNCS--SLVVIA----PNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       626 ~lp~~i~~L~~L~~L~l~~~~--~l~~~~----~~~l~~L~~L~~L~l~~~  670 (1209)
                      .+-..+..-+.|++|+++++.  .+....    ...+..=+.|..|+++.+
T Consensus       117 ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          117 RLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence            223334444567777776532  122110    112333456777776543

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=90.37  E-value=0.11  Score=51.56  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=18.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|.|+.|+||||+|+.+++...
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999987654

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=90.35  E-value=0.17  Score=49.82  Aligned_cols=25  Identities=48%  Similarity=0.619  Sum_probs=22.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .++|+|+.|+|||||++.++....+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5899999999999999999987753

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=90.29  E-value=0.17  Score=50.57  Aligned_cols=26  Identities=31%  Similarity=0.502  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+|+|+|+.|+||||+|+.+.+..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998763

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=90.29  E-value=1.2  Score=52.25  Aligned_cols=51  Identities=27%  Similarity=0.210  Sum_probs=37.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..++.|.|.+|+||||+|.+++.....+. =..++|++...  +..++...++.
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEeccC--CHHHHHHHHHH
Confidence            46899999999999999999998876531 13577877644  45566665543

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=90.26  E-value=0.16  Score=51.74  Aligned_cols=27  Identities=37%  Similarity=0.516  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+|+|+|..|.|||||++.++....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            446899999999999999999988754

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=90.19  E-value=0.18  Score=51.81  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|.|++|+||||+|+.+++...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999988764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=90.10  E-value=0.18  Score=53.06  Aligned_cols=28  Identities=25%  Similarity=0.382  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ....+|+|.|+.|+||||+|+.++....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3456899999999999999999988654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=90.08  E-value=0.18  Score=50.59  Aligned_cols=25  Identities=32%  Similarity=0.571  Sum_probs=22.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|+|.|+.|+||||+|+.+++....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999987743

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=90.07  E-value=0.66  Score=61.36  Aligned_cols=86  Identities=17%  Similarity=0.169  Sum_probs=56.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCC-----CCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFD-----LNDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~-----~~~~~~~~~~~l~~  254 (1209)
                      ..+|.|.|.+|+||||||.+++......  -..++|++........     .++.++.+..     ......+....+.+
T Consensus       732 G~lVlI~G~PG~GKTtLal~lA~~aa~~--g~~VlyiS~Ees~~ql-----~A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCcHHHHHHHHHHHHHc--CCCeEEEeccchHHHH-----HHHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            4689999999999999999999887643  2367888877765543     2566664321     12232333333433


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      ...+.+.-+||+|.+...
T Consensus       805 lv~~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHccCCCEEEEechhhh
Confidence            333456679999998754

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=90.06  E-value=0.17  Score=51.36  Aligned_cols=24  Identities=46%  Similarity=0.686  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+|+|+|.+|.||||+|+.+...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999998764

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=90.06  E-value=0.19  Score=51.29  Aligned_cols=32  Identities=19%  Similarity=0.234  Sum_probs=26.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCE
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDK  212 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  212 (1209)
                      ..+|+|.|+.|+||||+|+.+++.... .+++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~-~~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN-NNVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH-cCCcE
Confidence            468999999999999999999987754 23444

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.00  E-value=0.18  Score=49.21  Aligned_cols=27  Identities=30%  Similarity=0.458  Sum_probs=23.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ++++|+|..|.|||||++.+..-...+
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            589999999999999999999877653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=89.99  E-value=0.14  Score=51.59  Aligned_cols=26  Identities=27%  Similarity=0.420  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++++|+|+.|+|||||++.+.....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            35789999999999999999987653

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=89.96  E-value=0.2  Score=51.25  Aligned_cols=27  Identities=19%  Similarity=0.354  Sum_probs=24.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+|+|.|+.|+||||+|+.+++....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999988764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=89.93  E-value=0.17  Score=60.92  Aligned_cols=49  Identities=16%  Similarity=0.164  Sum_probs=40.4

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.....++|.+..++.+...+..+  ..+.|+|++|+||||+|+.++....
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            344667899988888888777655  4789999999999999999998664

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=89.92  E-value=0.28  Score=51.70  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|.|++|.||||+|+.++....
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999999987653

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=89.86  E-value=0.7  Score=61.96  Aligned_cols=87  Identities=17%  Similarity=0.148  Sum_probs=57.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLC  253 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~  253 (1209)
                      ...++.|+|.+|+||||||.+++......  -..++|++.....+...     ++.++.+.+.     .....+....+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a~~--G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            34699999999999999999999887643  24688998887776542     5666654321     222233333333


Q ss_pred             HHHhcCCeEEEEEeCCCcc
Q 038494          254 QRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       254 ~~l~~~k~~LlvlDdv~~~  272 (1209)
                      ....+.+.-+||+|-+...
T Consensus       455 ~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGGC
T ss_pred             HHHHhcCCcEEEECCHHHh
Confidence            2233456679999998654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=89.77  E-value=0.16  Score=49.72  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~  200 (1209)
                      ..+++|+|+.|.|||||++.+
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999964

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=89.77  E-value=0.3  Score=52.72  Aligned_cols=29  Identities=31%  Similarity=0.434  Sum_probs=25.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +..+|+|+|++|+||||+++.++......
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            34699999999999999999999887653

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=89.75  E-value=0.2  Score=51.38  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|+|.|++|+||||+|+.+++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987753

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=89.72  E-value=0.18  Score=57.22  Aligned_cols=47  Identities=30%  Similarity=0.282  Sum_probs=35.7

Q ss_pred             chhhHHHHHHHHHHHHhC--------------CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          160 AFDSRMKLFQDVVEALRN--------------DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .++|.++.++.+..++..              ...+-|.++|++|+||||+|+.++.....
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            467877777777666531              12356889999999999999999988753

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=89.71  E-value=0.18  Score=51.22  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      .+|+|+|+.|.||||+++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=89.69  E-value=0.21  Score=52.64  Aligned_cols=27  Identities=37%  Similarity=0.511  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+|+|+|+.|.||||+++.+++...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346999999999999999999987764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=89.68  E-value=0.18  Score=52.12  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...|.|.|++|+||||+|+.+++..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998765

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=89.63  E-value=0.32  Score=48.10  Aligned_cols=117  Identities=19%  Similarity=0.177  Sum_probs=59.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC---CcCHHHHHHHHH---HHhCCCCCCCC-C-------hH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE---NPDVQKIQDKLA---SDLDLNFDLND-S-------KP  246 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~---~~~~~~l~~~i~---~~l~~~~~~~~-~-------~~  246 (1209)
                      ..|.|++-.|.||||.|-..+-+.....  -.+.++..-.   ......+++.+.   ...+....... .       ..
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G--~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHG--KNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTT--CCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            4666777777999999999998876532  2455554433   223333333321   00011011110 0       01


Q ss_pred             HHHHHHHHHHhcCCeEEEEEeCCCccc-----CccccCCCCCCCCccccccccCCcEEEEeccchh
Q 038494          247 HRAKQLCQRLTKEKRVLIILDNIWKKL-----GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH  307 (1209)
Q Consensus       247 ~~~~~l~~~l~~~k~~LlvlDdv~~~~-----~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~  307 (1209)
                      .....+.+.+.+++--|||||++-...     ..+.+...+....        ....||+|+|...
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp--------~~~~vIlTGr~ap  164 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARP--------GHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSC--------TTCEEEEECSSCC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCc--------CCCEEEEECCCCc
Confidence            222344445545566799999985431     1122211111111        4667999999864

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=89.60  E-value=0.22  Score=47.88  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+++|+|+.|.|||||++.++.-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            445699999999999999999999876

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=89.56  E-value=0.43  Score=47.41  Aligned_cols=81  Identities=12%  Similarity=0.070  Sum_probs=42.1

Q ss_pred             cCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCC---C----
Q 038494          564 EGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDI---K----  625 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~---~----  625 (1209)
                      ..-+.|+.|+|++|.+.     .|-+.+..-+.|++|+|++|.|..-      ..+..-+.|++|+++++..   .    
T Consensus        67 ~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~  146 (197)
T 1pgv_A           67 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVE  146 (197)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHH
T ss_pred             hhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHH
Confidence            44556666666666664     2334444555666666666665432      3344444566666654322   2    


Q ss_pred             -ccchhccCCCCCCEEeccC
Q 038494          626 -QLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       626 -~lp~~i~~L~~L~~L~l~~  644 (1209)
                       .+...+..-+.|..|+++.
T Consensus       147 ~~ia~aL~~N~tL~~L~l~~  166 (197)
T 1pgv_A          147 MDMMMAIEENESLLRVGISF  166 (197)
T ss_dssp             HHHHHHHHHCSSCCEEECCC
T ss_pred             HHHHHHHHhCCCcCeEeccC
Confidence             1222333445566666654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=89.49  E-value=0.37  Score=49.09  Aligned_cols=28  Identities=25%  Similarity=0.404  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ....+|.|.|+.|+||||+|+.++....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4457899999999999999999998775

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=89.44  E-value=0.2  Score=50.92  Aligned_cols=26  Identities=23%  Similarity=0.443  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=89.38  E-value=0.2  Score=51.65  Aligned_cols=26  Identities=19%  Similarity=0.146  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|.|++|+||||+|+.+++...
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999988764

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=89.34  E-value=0.65  Score=50.19  Aligned_cols=49  Identities=33%  Similarity=0.365  Sum_probs=34.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcCHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ...+++|.|.+|+|||||++.++......  -+ .++|+....  ...++.+.+
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~--~G~~v~~~~~e~--~~~~~~~r~   83 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTA--MGKKVGLAMLEE--SVEETAEDL   83 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHT--SCCCEEEEESSS--CHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHH--cCCeEEEEeCcC--CHHHHHHHH
Confidence            34699999999999999999999887653  22 466776543  334444333

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=89.31  E-value=0.13  Score=52.57  Aligned_cols=25  Identities=32%  Similarity=0.654  Sum_probs=22.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +|+|.|..|+||||+|+.+......
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            7899999999999999999988754

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=89.24  E-value=0.22  Score=51.06  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .|+|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=89.15  E-value=1.3  Score=50.80  Aligned_cols=98  Identities=15%  Similarity=0.155  Sum_probs=58.6

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC-HHHHHHHHHH----HhCCC------
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD-VQKIQDKLAS----DLDLN------  238 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~-~~~l~~~i~~----~l~~~------  238 (1209)
                      .++.+. =.+...++|.|.+|+|||+|++++++...    -+.++++-+.+... +.++++.+-+    ..+..      
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~~----~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtv  292 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWSD----AQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTV  292 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHSS----CSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEE
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHHhcccccccccccceE
Confidence            445554 23446889999999999999999876532    35788888887654 5555555422    11100      


Q ss_pred             ---CCCCCChHH------HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          239 ---FDLNDSKPH------RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       239 ---~~~~~~~~~------~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                         .........      ..-.+-+++. +++.+||++||+..-
T Consensus       293 vV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~  336 (588)
T 3mfy_A          293 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRW  336 (588)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTC
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHH
Confidence               011111111      1123444454 479999999999754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=89.12  E-value=0.18  Score=51.68  Aligned_cols=25  Identities=32%  Similarity=0.559  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998754

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=89.10  E-value=0.69  Score=53.58  Aligned_cols=53  Identities=25%  Similarity=0.448  Sum_probs=37.8

Q ss_pred             hHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          163 SRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       163 gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      +..+.+..+.+++.+++ +.+.|.|.+|+|||+++..++........ ..++.+.
T Consensus        29 ~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~a   81 (459)
T 3upu_A           29 GQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALISTGE-TGIILAA   81 (459)
T ss_dssp             HHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEEE
T ss_pred             HHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEec
Confidence            45556666777776544 48999999999999999999988765422 2344443

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=89.07  E-value=0.23  Score=50.27  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...|+|.|+.|+||||+++.+++..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999998765

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=89.06  E-value=0.27  Score=48.49  Aligned_cols=27  Identities=22%  Similarity=0.335  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+|+|.|+.|.||||+++.++.....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            468999999999999999999887643

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=89.00  E-value=0.41  Score=46.74  Aligned_cols=27  Identities=26%  Similarity=0.509  Sum_probs=23.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .++++|+|..|+||||++..+......
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            578999999999999999999987653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=88.97  E-value=0.22  Score=52.09  Aligned_cols=26  Identities=35%  Similarity=0.336  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|+|+.|.||||+++.++....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999998764

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=88.93  E-value=0.81  Score=49.78  Aligned_cols=39  Identities=36%  Similarity=0.427  Sum_probs=29.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT  219 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s  219 (1209)
                      ...+|+|+|.+|+||||++..++......  -..+.++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~--g~kVllid~D  142 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL--GYKVLIAAAD  142 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCC
Confidence            35699999999999999999999877653  2345556543

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=88.89  E-value=0.24  Score=53.84  Aligned_cols=43  Identities=23%  Similarity=0.225  Sum_probs=30.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ....+|+|.|..|.|||||++.++.-......-..+.++....
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~  130 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDG  130 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCc
Confidence            4457999999999999999999988765421112356666543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=88.87  E-value=0.86  Score=60.33  Aligned_cols=86  Identities=17%  Similarity=0.155  Sum_probs=63.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC-----CCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL-----NDSKPHRAKQLCQ  254 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~l~~  254 (1209)
                      .++|-|+|+.|.||||||.++.......  =+.++|+++.+..+...     ++.+|.+.+.     .+..+..+..+..
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~~--g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            4789999999999999999999776543  35789999988888764     7888877543     2222444444555


Q ss_pred             HHhcCCeEEEEEeCCCcc
Q 038494          255 RLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       255 ~l~~~k~~LlvlDdv~~~  272 (1209)
                      .+..+..-+||+|-|...
T Consensus      1504 ~~~s~~~~~vvvDsv~al 1521 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSVAAL 1521 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHcCCCCEEEEccHHhC
Confidence            555677889999988543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=88.85  E-value=0.26  Score=50.71  Aligned_cols=26  Identities=23%  Similarity=0.488  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|+|.|++|.||||+|+.+++...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=88.83  E-value=0.23  Score=50.76  Aligned_cols=27  Identities=22%  Similarity=0.319  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+++|+|+.|+|||||.+.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            356999999999999999999987654

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=88.82  E-value=0.26  Score=51.60  Aligned_cols=27  Identities=30%  Similarity=0.438  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+|+|.|..|.||||+++.++...
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999998765

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=88.76  E-value=0.58  Score=52.05  Aligned_cols=39  Identities=26%  Similarity=0.509  Sum_probs=30.3

Q ss_pred             HHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          168 FQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       168 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+.+.+.  .....+|+|+|.+|+||||++..++.....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~  105 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIE  105 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            445555554  456789999999999999999999887654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=88.74  E-value=0.62  Score=42.98  Aligned_cols=52  Identities=15%  Similarity=0.333  Sum_probs=37.0

Q ss_pred             EEEccCCCCC--ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          616 ILSFRYSDIK--QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       616 ~L~l~~~~~~--~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .++.+++.++  .+|..+  -.+|++|++++ +.++.++.+.+..+++|+.|++.+|
T Consensus        12 ~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF--PVDTTELVLTG-NNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC--CTTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             EEEeCCCCCccccCCCCC--CcCCCEEECCC-CcCCccChhhhhhccccCEEEecCC
Confidence            5666666776  777543  24677888887 6777777777777778888877765

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=88.66  E-value=0.75  Score=47.40  Aligned_cols=37  Identities=19%  Similarity=0.454  Sum_probs=28.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      ...|+|.|+.|+||||+++.+++..... .+..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeec
Confidence            4689999999999999999999988753 455344443

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=88.61  E-value=0.28  Score=49.59  Aligned_cols=24  Identities=38%  Similarity=0.422  Sum_probs=21.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +|.|.|++|+||||.|+.+++...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999998764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=88.45  E-value=0.81  Score=46.40  Aligned_cols=52  Identities=17%  Similarity=0.235  Sum_probs=34.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..|+|.|..|+||||+++.+++..... .+..+.+..-.....+.+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            589999999999999999999988754 3433344433333334455555554

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=88.44  E-value=0.27  Score=53.48  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|+|.|++|+||||||..++....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999988653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=88.38  E-value=0.25  Score=50.69  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..|.|.|++|+||||+|+.+++...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988763

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=88.31  E-value=0.28  Score=53.03  Aligned_cols=24  Identities=29%  Similarity=0.326  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ++|.|+|+.|+||||+|+.++...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998765

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=88.30  E-value=0.88  Score=51.88  Aligned_cols=102  Identities=19%  Similarity=0.222  Sum_probs=58.2

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHH-HHHHHHhh----cccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCCC----
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVK-QIAKQVME----DKVFD-KVVMAEVTENP-DVQKIQDKLASDLDLN----  238 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~-~~~~~~~~----~~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~~----  238 (1209)
                      .++.+. =.+...+.|+|.+|+|||+||. .+++....    .++-+ .++++-+.+.. .+.++.+.+...-...    
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvv  231 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  231 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceE
Confidence            344443 2334578999999999999965 55555442    12234 46778887765 4566666665421111    


Q ss_pred             --CCCCCChHH------HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          239 --FDLNDSKPH------RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       239 --~~~~~~~~~------~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                        .........      ..-.+-+++. +++..||++||+...
T Consensus       232 V~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~  274 (510)
T 2ck3_A          232 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQ  274 (510)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHH
Confidence              011111111      1123445554 479999999998754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=88.16  E-value=0.45  Score=51.32  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=24.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+++|+|+.|+||||+++.++.....
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            469999999999999999999988764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=88.14  E-value=0.29  Score=50.34  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998775

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=88.12  E-value=0.49  Score=53.20  Aligned_cols=93  Identities=22%  Similarity=0.205  Sum_probs=56.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc-ccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCCC------CCCCCCh-----
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED-KVFD-KVVMAEVTENP-DVQKIQDKLASDLDLN------FDLNDSK-----  245 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~-~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~~------~~~~~~~-----  245 (1209)
                      ...+.|.|.+|+|||+|+.++++..... ++-+ .++++-+.+.. .+.++++.+...-...      ...+...     
T Consensus       151 GQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~  230 (465)
T 3vr4_D          151 GQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIA  230 (465)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHH
T ss_pred             CCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHH
Confidence            3467899999999999999998876542 1122 56777777654 4566666654431110      0111111     


Q ss_pred             -HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          246 -PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 -~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                       ....-.+-+++.  +++.+||++||+..-
T Consensus       231 a~~~a~tiAEyfrd~~G~~VLl~~DslTr~  260 (465)
T 3vr4_D          231 TPRMALTAAEYLAYEKGMHVLVIMTDMTNY  260 (465)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEEECHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEcChHHH
Confidence             112234666666  389999999998754

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=88.11  E-value=0.3  Score=52.15  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|+|.|+.|+||||||..++...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3689999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=88.11  E-value=0.27  Score=48.91  Aligned_cols=25  Identities=32%  Similarity=0.461  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+++|+|..|+||||+++.++....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3689999999999999999998765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=88.10  E-value=1.3  Score=50.82  Aligned_cols=49  Identities=18%  Similarity=0.215  Sum_probs=35.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ..++.|.|.+|+||||+|.+++.....+  =..++|++....  ..++...+.
T Consensus       197 G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEms--~~ql~~R~~  245 (444)
T 3bgw_A          197 RNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEMG--KKENIKRLI  245 (444)
T ss_dssp             SCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSSC--TTHHHHHHH
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCCC--HHHHHHHHH
Confidence            4689999999999999999999887654  236777765433  334444433

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=88.08  E-value=0.29  Score=49.99  Aligned_cols=23  Identities=26%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .|.|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998866

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=88.05  E-value=0.32  Score=49.88  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      ..+|+|.|+.|.||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999975

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=87.96  E-value=0.38  Score=54.48  Aligned_cols=94  Identities=20%  Similarity=0.194  Sum_probs=58.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhccc--CCEEEEEEcCCCc-CHHHHHHHHHHHhCCC------CCCCCCh----
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV--FDKVVMAEVTENP-DVQKIQDKLASDLDLN------FDLNDSK----  245 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~--f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~------~~~~~~~----  245 (1209)
                      +...++|.|.+|+|||+|+.++++.....+.  =+.++++-+.+.. .+.++++.+...-...      ...+...    
T Consensus       151 rGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~  230 (469)
T 2c61_A          151 RGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI  230 (469)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHH
Confidence            3456789999999999999999988764221  1356677776654 4566666665432111      0111111    


Q ss_pred             --HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          246 --PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       246 --~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                        ....-.+-+++.  +++.+|+++||+..-
T Consensus       231 ~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~  261 (469)
T 2c61_A          231 VTPRMALTAAEYLAYEHGMHVLVILTDITNY  261 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHCCEEEEEEECHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeCHHHH
Confidence              112234555665  489999999998654

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=87.95  E-value=0.31  Score=49.43  Aligned_cols=25  Identities=20%  Similarity=0.482  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++|+|.|+.|+||||+|+.++....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            3 GIVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3899999999999999999988764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=87.90  E-value=0.35  Score=50.21  Aligned_cols=26  Identities=27%  Similarity=0.194  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|.|.|+.|+||||+|+.+++...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999998764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=87.81  E-value=0.29  Score=53.07  Aligned_cols=26  Identities=27%  Similarity=0.442  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..++|+|+|+.|+||||||..+++..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34689999999999999999998754

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=87.80  E-value=0.84  Score=46.49  Aligned_cols=29  Identities=31%  Similarity=0.381  Sum_probs=25.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .....|+|.|..|+||||+++.+++....
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            44578999999999999999999988865

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=87.71  E-value=0.31  Score=52.20  Aligned_cols=22  Identities=27%  Similarity=0.785  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIA  201 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~  201 (1209)
                      ..+|+|.|+.|+||||+|+.+.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999998

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=87.59  E-value=0.59  Score=48.18  Aligned_cols=28  Identities=25%  Similarity=0.470  Sum_probs=24.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ....|+|.|+.|+||||+++.+++....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3468999999999999999999988864

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=87.52  E-value=0.34  Score=51.67  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|.|.|+.|+||||||..+++..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4689999999999999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=87.51  E-value=0.63  Score=50.55  Aligned_cols=43  Identities=19%  Similarity=0.179  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ....+|+|+|..|.|||||++.+.........-+.+.+++...
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~  120 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG  120 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCC
Confidence            3457999999999999999999987654100012355665544

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=86.91  E-value=2.3  Score=59.38  Aligned_cols=146  Identities=13%  Similarity=0.076  Sum_probs=76.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      +-|.++|++|+|||++|+.+.....   .+ ..+.++.+...+...+++.+...+.........       +..--..++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~---~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~-------~~~P~~~gk 1336 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSS---LY-DVVGINFSKDTTTEHILSALHRHTNYVTTSKGL-------TLLPKSDIK 1336 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCS---SC-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTTE-------EEEEBSSSS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCC---CC-ceEEEEeecCCCHHHHHHHHHHHhhhccccCCc-------cccCCCCCc
Confidence            4678999999999999987765431   12 456678888778877777766655322100000       000000267


Q ss_pred             eEEEEEeCCCcc--cCc------cccCCCCCCCCcccc----ccccCCcEEEEeccchh------hhcccCCcceEEEcC
Q 038494          261 RVLIILDNIWKK--LGL------EEIGIPFGDVDEKDR----KQDLRRRTIILTSRSKH------LLTNDMNSQKIFLIE  322 (1209)
Q Consensus       261 ~~LlvlDdv~~~--~~~------~~l~~~~~~~~~~~~----~~~~~~s~ilvTtR~~~------v~~~~~~~~~~~~l~  322 (1209)
                      +.++.+||+.-.  +.|      +.+...+..++...+    .....+..+|.++-...      +.........++.++
T Consensus      1337 ~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~ 1416 (2695)
T 4akg_A         1337 NLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLG 1416 (2695)
T ss_dssp             CEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECC
T ss_pred             eEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeC
Confidence            899999997543  111      001100000000000    00002233444443221      111112344688999


Q ss_pred             CCCHHHHHHHHHHHh
Q 038494          323 VLSKEEALQFFEKIV  337 (1209)
Q Consensus       323 ~L~~~e~~~lf~~~~  337 (1209)
                      ..+.++-..+|....
T Consensus      1417 ~P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1417 YPSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CCTTTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999988888887765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=86.84  E-value=0.36  Score=50.12  Aligned_cols=26  Identities=27%  Similarity=0.400  Sum_probs=22.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .. .+++|+|+.|.|||||.+.++--.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            35 789999999999999999986543

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=86.84  E-value=0.25  Score=51.22  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=16.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHH-HHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIA-KQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~-~~~  204 (1209)
                      ..+++|+|+.|+||||+++.++ ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999998 554

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=86.82  E-value=0.59  Score=51.54  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=24.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ..+++|+|..|+||||+++.++.....
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            469999999999999999999988764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=86.56  E-value=0.48  Score=50.15  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..++.+.|.||+||||++..++....
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            56889999999999999999998776

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=86.54  E-value=0.29  Score=49.50  Aligned_cols=24  Identities=38%  Similarity=0.261  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+++|+|+.|.|||||++.++--
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999999876

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=86.53  E-value=0.34  Score=50.17  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|.|||||.+.++--.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34689999999999999999886543

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=86.49  E-value=1  Score=50.54  Aligned_cols=93  Identities=19%  Similarity=0.209  Sum_probs=56.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc--------ccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCC-------CCCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED--------KVFD-KVVMAEVTENP-DVQKIQDKLASDLDL-------NFDLN  242 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~--------~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~-------~~~~~  242 (1209)
                      ...+.|.|.+|+|||+|+.++++.....        ++-+ .++++-+.+.. .+.++.+.+...-..       ...+.
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~  226 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADD  226 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTS
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCC
Confidence            4567899999999999999998876541        1222 56677777654 455666655432100       01111


Q ss_pred             CCh-----HHHHHHHHHHHh--cCCeEEEEEeCCCcc
Q 038494          243 DSK-----PHRAKQLCQRLT--KEKRVLIILDNIWKK  272 (1209)
Q Consensus       243 ~~~-----~~~~~~l~~~l~--~~k~~LlvlDdv~~~  272 (1209)
                      +..     ....-.+-+++.  +++.+||++||+..-
T Consensus       227 p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr~  263 (464)
T 3gqb_B          227 PTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNY  263 (464)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHH
Confidence            111     112234566666  379999999998754

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=86.41  E-value=1.3  Score=44.82  Aligned_cols=32  Identities=22%  Similarity=0.267  Sum_probs=26.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCE
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDK  212 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  212 (1209)
                      ...|+|.|+.|+||||+++.+++..... .+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v   37 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEV   37 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCc
Confidence            4689999999999999999999888753 3444

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=86.40  E-value=1  Score=45.64  Aligned_cols=37  Identities=24%  Similarity=0.256  Sum_probs=27.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      .|.+.|.||+||||+|..++.....+. + .+..+.+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G-~-~V~v~d~D~   44 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQG-V-RVMAGVVET   44 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTT-C-CEEEEECCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCC-C-CEEEEEeCC
Confidence            478999999999999999998887542 3 344455544

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=86.40  E-value=0.91  Score=49.96  Aligned_cols=47  Identities=30%  Similarity=0.430  Sum_probs=34.8

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHh--hcccCCEEEEEEcCCCcCHH
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVM--EDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      +...+++.+.|-||+||||+|..++....  ..  =..+.-++.....+..
T Consensus        15 ~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~--g~~vllid~D~~~~l~   63 (348)
T 3io3_A           15 HDSLKWIFVGGKGGVGKTTTSSSVAVQLALAQP--NEQFLLISTDPAHNLS   63 (348)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHHHHHCT--TSCEEEEECCSSCHHH
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcC--CCeEEEEECCCCCChH
Confidence            45568999999999999999999998876  32  2356667766544433

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=86.17  E-value=0.73  Score=48.06  Aligned_cols=38  Identities=26%  Similarity=0.246  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhCC--CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          167 LFQDVVEALRND--KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       167 ~~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+..|+...  +...|.++|++|+|||.+|..+++..
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            345577777643  34579999999999999999998864

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=86.14  E-value=1.5  Score=50.59  Aligned_cols=97  Identities=21%  Similarity=0.215  Sum_probs=57.4

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHH----HhCCCC-----
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLAS----DLDLNF-----  239 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~----~l~~~~-----  239 (1209)
                      .++.|. =.+...++|.|.+|+|||+|+.++++...    -+.++++-+.+.. .+.++++.+-+    ..+...     
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtv  297 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWSD----VDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTV  297 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEE
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceE
Confidence            445554 23456889999999999999999987643    3567888887763 34444444321    111110     


Q ss_pred             ----CCCCChHH------HHHHHHHHHh-cCCeEEEEEeCCCc
Q 038494          240 ----DLNDSKPH------RAKQLCQRLT-KEKRVLIILDNIWK  271 (1209)
Q Consensus       240 ----~~~~~~~~------~~~~l~~~l~-~~k~~LlvlDdv~~  271 (1209)
                          ........      ..-.+-+++. +++.+||++|++..
T Consensus       298 vV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR  340 (600)
T 3vr4_A          298 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTSR  340 (600)
T ss_dssp             EEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHH
Confidence                01111111      1123445554 47899999999863

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=86.13  E-value=0.25  Score=53.04  Aligned_cols=27  Identities=30%  Similarity=0.425  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+|+|.|..|+||||+|+.+.+...
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999988654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=86.02  E-value=0.76  Score=48.36  Aligned_cols=29  Identities=28%  Similarity=0.447  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ....+++|+|+.|.||||+++.+......
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCC
Confidence            34579999999999999999999876543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=85.93  E-value=0.32  Score=48.06  Aligned_cols=25  Identities=20%  Similarity=0.213  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+.|.|.|.+|+||||||.+++...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3578999999999999999998654

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=85.85  E-value=1.1  Score=49.16  Aligned_cols=48  Identities=29%  Similarity=0.323  Sum_probs=35.7

Q ss_pred             hCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          176 RNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       176 ~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      .+...+++.+.|-||+||||+|..++......  =..+.-|+.....+..
T Consensus        12 ~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~~--g~~vllid~D~~~~l~   59 (334)
T 3iqw_A           12 DQRSLRWIFVGGKGGVGKTTTSCSLAIQLAKV--RRSVLLLSTDPAHNLS   59 (334)
T ss_dssp             HCTTCCEEEEECSTTSSHHHHHHHHHHHHTTS--SSCEEEEECCSSCHHH
T ss_pred             cCCCeEEEEEeCCCCccHHHHHHHHHHHHHhC--CCcEEEEECCCCCChh
Confidence            34556788999999999999999999888753  2356777776554433

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=85.80  E-value=0.39  Score=49.79  Aligned_cols=27  Identities=22%  Similarity=0.411  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+++|+|..|.|||||++.++.-..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            346899999999999999999976543

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=85.78  E-value=0.43  Score=51.80  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      .+|.|.|++|+||||+|+.+++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999999874

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=85.75  E-value=3.5  Score=46.78  Aligned_cols=90  Identities=19%  Similarity=0.201  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCChHHHHHH-HHHHHHhhcccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCCCC------CCCCChH---
Q 038494          179 KLNIIGVHGMGGVGKTTLVK-QIAKQVMEDKVFD-KVVMAEVTENP-DVQKIQDKLASDLDLNF------DLNDSKP---  246 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~-~~~~~~~~~~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~~~~~~~---  246 (1209)
                      +...+.|.|..|+|||+||. .+++. +   +-+ .++++-+.+.. .+.++.+.+.+.-....      .......   
T Consensus       161 rGQR~~Ifg~~g~GKT~l~l~~I~n~-~---~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~  236 (513)
T 3oaa_A          161 RGQRELIIGDRQTGKTALAIDAIINQ-R---DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQY  236 (513)
T ss_dssp             TTCBCEEEESSSSSHHHHHHHHHHTT-S---SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHH
T ss_pred             cCCEEEeecCCCCCcchHHHHHHHhh-c---cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHH
Confidence            34578999999999999974 55543 2   233 46788888765 45666666544321110      1111111   


Q ss_pred             ---HHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          247 ---HRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       247 ---~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                         ...-.+-+++. +++..||++||+...
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLli~Dsltr~  266 (513)
T 3oaa_A          237 LAPYAGCAMGEYFRDRGEDALIIYDDLSKQ  266 (513)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEEETHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEecChHHH
Confidence               11123444444 479999999998654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=85.60  E-value=0.37  Score=49.50  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||.+.++--.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999886443

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=85.47  E-value=0.45  Score=47.49  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...|+|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999998654

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=85.47  E-value=0.49  Score=52.53  Aligned_cols=25  Identities=36%  Similarity=0.571  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++|+|.|+.|+||||||..++....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5899999999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=85.43  E-value=0.41  Score=50.50  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|.|||||.+.++--.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999986543

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=85.38  E-value=0.5  Score=50.75  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+..+++|+|+.|.|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            445799999999999999999998766

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=85.23  E-value=0.61  Score=53.95  Aligned_cols=44  Identities=11%  Similarity=-0.003  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          163 SRMKLFQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       163 gR~~~~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|.+..+.+.+...  .....+|.+.|++|.||||+|+.+++....
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            44444555555442  234578999999999999999999999864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=85.12  E-value=0.59  Score=48.51  Aligned_cols=27  Identities=37%  Similarity=0.413  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+|+|.|+.|.||||+++.++....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            346899999999999999999987653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=85.10  E-value=0.55  Score=45.02  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      +.|+|+|.+|+|||||+..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999764

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=85.04  E-value=0.51  Score=49.93  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...+++|+|..|.|||||.+.++--
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999764

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=84.98  E-value=0.45  Score=50.14  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|.|||||.+.++--.
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            44689999999999999999986543

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=84.81  E-value=0.54  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      ..|+|+|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999975

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=84.79  E-value=1.7  Score=43.45  Aligned_cols=50  Identities=20%  Similarity=0.317  Sum_probs=32.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      .|+|-|.-|+||||.++.+++..+.+. . .+.+..-.......+..+.++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g-~-~v~~treP~~t~~~~~ir~~l~   51 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRG-K-KVILKREPGGTETGEKIRKILL   51 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT-C-CEEEEESSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEECCCCCcHHHHHHHHhh
Confidence            478999999999999999999887642 2 3344433333334444444443

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=84.76  E-value=0.48  Score=49.36  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|..|.|||||.+.++--.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999986543

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=84.71  E-value=0.42  Score=50.70  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||++.++--.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4589999999999999999986543

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=84.70  E-value=0.52  Score=49.32  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+++|+|..|.|||||.+.++--
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=84.58  E-value=0.47  Score=50.80  Aligned_cols=26  Identities=31%  Similarity=0.406  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..++.|+|.+|+|||||+..++....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999999987554

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=84.51  E-value=1.1  Score=49.84  Aligned_cols=27  Identities=26%  Similarity=0.160  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+++|+|++|.|||||++.++...
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            445699999999999999999999754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=84.50  E-value=0.42  Score=47.37  Aligned_cols=21  Identities=43%  Similarity=0.593  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      -|+|+|.+|+|||||...+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            578999999999999999875

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=84.48  E-value=0.6  Score=48.65  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...|+|.|..|+||||+++.+++...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999988763

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=84.41  E-value=1.3  Score=50.30  Aligned_cols=98  Identities=14%  Similarity=0.182  Sum_probs=56.7

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHH-HHHHHHhhcccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCCC------CC
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVK-QIAKQVMEDKVFD-KVVMAEVTENP-DVQKIQDKLASDLDLN------FD  240 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~-~~~~~~~~~~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~~------~~  240 (1209)
                      .++.+. =.+...+.|+|.+|+|||+||. .+++...    .+ .++++-+.+.. .+.++.+.+...-...      ..
T Consensus       165 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~----~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~at  240 (515)
T 2r9v_A          165 AIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVAS  240 (515)
T ss_dssp             HHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEEC
T ss_pred             ccccccccccCCEEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEEC
Confidence            344443 1334578999999999999965 5555432    45 35777777664 4566666665421111      11


Q ss_pred             CCCChHH------HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          241 LNDSKPH------RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       241 ~~~~~~~------~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .......      ..-.+-+++. +++..||++||+...
T Consensus       241 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~  279 (515)
T 2r9v_A          241 ASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKH  279 (515)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHH
Confidence            1111111      1223445554 479999999998754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=84.31  E-value=0.57  Score=47.08  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..|+|+|..|+|||||.+.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999865

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=84.29  E-value=0.58  Score=47.24  Aligned_cols=37  Identities=22%  Similarity=0.141  Sum_probs=21.5

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .+.+.+.....+.-.|+|+|.+|+|||||...+.+..
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3344343334445678999999999999998887543

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=84.26  E-value=0.5  Score=49.54  Aligned_cols=26  Identities=35%  Similarity=0.552  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|.|||||.+.++--.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999986543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=84.24  E-value=0.51  Score=49.74  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...+++|+|+.|.|||||.+.++.-
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3468999999999999999998754

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=84.23  E-value=0.46  Score=49.39  Aligned_cols=25  Identities=40%  Similarity=0.497  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||.+.++--.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999986543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=84.19  E-value=0.75  Score=45.48  Aligned_cols=26  Identities=19%  Similarity=0.069  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .++.|+|..|+||||++..++++...
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999888877654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=84.15  E-value=0.98  Score=44.90  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3458899999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=84.14  E-value=0.51  Score=50.03  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|..|.|||||.+.++--.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999987544

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=84.13  E-value=0.5  Score=48.74  Aligned_cols=26  Identities=31%  Similarity=0.471  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|+|+.|.|||||.+.++.-..
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            45899999999999999999976543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=84.07  E-value=0.5  Score=49.33  Aligned_cols=25  Identities=40%  Similarity=0.593  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|..|.|||||.+.++--.
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999986544

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=84.06  E-value=0.49  Score=49.99  Aligned_cols=25  Identities=24%  Similarity=0.506  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||++.++--.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999987544

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=84.06  E-value=0.67  Score=49.21  Aligned_cols=38  Identities=16%  Similarity=0.385  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ++|+|.|-||+||||+|..++.....+.  ..+.-|+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G--~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT--CCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCC--CcEEEEcCCC
Confidence            5788899999999999999998887432  2566676653

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=84.03  E-value=0.43  Score=48.47  Aligned_cols=25  Identities=44%  Similarity=0.740  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||.+.++--.
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999986543

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=83.86  E-value=0.44  Score=54.26  Aligned_cols=27  Identities=19%  Similarity=0.375  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....+|.|+|++|.||||+|+.++.+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            345799999999999999999987654

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=83.85  E-value=0.48  Score=49.83  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||.+.++--.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999986543

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=83.59  E-value=1  Score=44.60  Aligned_cols=34  Identities=24%  Similarity=0.340  Sum_probs=25.8

Q ss_pred             HHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          169 QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       169 ~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+.+ +.......|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34445 33455668899999999999999998753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=83.58  E-value=0.56  Score=49.63  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...+++|+|..|.|||||.+.++--
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3468999999999999999998654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=83.32  E-value=1.5  Score=44.74  Aligned_cols=27  Identities=30%  Similarity=0.471  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...|+|-|+.|+||||+++.+++....
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999999988865

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=83.19  E-value=0.62  Score=44.79  Aligned_cols=23  Identities=39%  Similarity=0.580  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .|.++|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998653

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=83.13  E-value=0.57  Score=48.86  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|+|+.|.|||||.+.++--..
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45899999999999999999865443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=83.12  E-value=0.65  Score=44.85  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -.|+|+|.+|+|||||+..+...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999999764

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=83.07  E-value=1.5  Score=44.27  Aligned_cols=43  Identities=26%  Similarity=0.293  Sum_probs=31.8

Q ss_pred             EEEE-EcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHH
Q 038494          182 IIGV-HGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       182 vi~I-~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      +|+| -+-||+||||+|..++.....+.   .+.-++.....+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~g---~VlliD~D~q~~~~~~   45 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQG---ETLLIDGDPNRSATGW   45 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTTS---CEEEEEECTTCHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhcC---CEEEEECCCCCCHHHH
Confidence            5666 47899999999999998887542   6777887765544433

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=82.99  E-value=0.48  Score=53.89  Aligned_cols=37  Identities=27%  Similarity=0.369  Sum_probs=28.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEV  218 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  218 (1209)
                      ..+|+|+|.+|+||||+|..++.....+.  ..+..++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G--~kVllv~~  135 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRG--LKPALIAA  135 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHH--CCEEEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEec
Confidence            35899999999999999999998776432  23455544

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=82.91  E-value=2.4  Score=48.18  Aligned_cols=98  Identities=17%  Similarity=0.247  Sum_probs=56.9

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHH-HHHHHHhhcccCC-EEEEEEcCCCc-CHHHHHHHHHHHhCCCC------C
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVK-QIAKQVMEDKVFD-KVVMAEVTENP-DVQKIQDKLASDLDLNF------D  240 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~-~~~~~~~~~~~f~-~~~wv~~s~~~-~~~~l~~~i~~~l~~~~------~  240 (1209)
                      .++.+. =.+...+.|+|.+|+|||+||. .+++...    -+ .++++-+.+.. .+.++.+.+...-....      .
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~at  227 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKG----QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTAS  227 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGGS----CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEEC
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhhc----CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEEC
Confidence            344443 2334578999999999999965 5555431    45 35777777665 45666666654321111      1


Q ss_pred             CCCChHHH------HHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          241 LNDSKPHR------AKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       241 ~~~~~~~~------~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ........      .-.+-+++. +++..||++||+...
T Consensus       228 ad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~  266 (502)
T 2qe7_A          228 ASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQ  266 (502)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHH
Confidence            11111111      123445554 479999999998754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=82.76  E-value=0.6  Score=48.89  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||.+.++--.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999987544

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=82.74  E-value=0.81  Score=49.21  Aligned_cols=39  Identities=23%  Similarity=0.434  Sum_probs=30.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      .++|+|.|-||+||||+|..++.....+.  ..+.-|+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~G--~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHCC--CeEEEEecCC
Confidence            36788899999999999999998886532  2466666654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=82.68  E-value=0.73  Score=44.30  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||||...+....
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999997654

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=82.62  E-value=0.68  Score=45.95  Aligned_cols=24  Identities=38%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -.|+|+|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            368899999999999999998653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=82.61  E-value=1.4  Score=44.31  Aligned_cols=44  Identities=23%  Similarity=0.306  Sum_probs=32.1

Q ss_pred             eEEEEE-cCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHH
Q 038494          181 NIIGVH-GMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       181 ~vi~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~  226 (1209)
                      ++|+|+ +-||+||||+|..++.....+  =..+.-++.....+...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~--g~~vlliD~D~~~~~~~   46 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRS--GYNIAVVDTDPQMSLTN   46 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECCTTCHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHC--CCeEEEEECCCCCCHHH
Confidence            578887 678899999999999888753  23567777765544433

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=82.60  E-value=0.58  Score=49.82  Aligned_cols=27  Identities=30%  Similarity=0.301  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ...+++|+|+.|.|||||.+.++--..
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~   72 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYEP   72 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            345899999999999999999875443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=82.55  E-value=0.77  Score=45.45  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999864

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=82.51  E-value=0.76  Score=46.20  Aligned_cols=26  Identities=23%  Similarity=0.219  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+|+|.|+.|+||||+|+.+++....
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            58999999999999999999998753

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=82.43  E-value=0.53  Score=48.67  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...+|+|.|..|.||||+++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3569999999999999999998664

---

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	1209
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-29
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-09
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.001
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.003
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	1e-06
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.003
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.003
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-05
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	1e-05
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-04
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	4e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	8e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.002
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	0.004
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	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 =  115 bits (289), Expect = 4e-29
 Identities = 35/274 (12%), Positives = 77/274 (28%), Gaps = 35/274 (12%)

Query: 164 RMKLFQDVVEALRN---DKLNIIGVHGMGGVGKTTLVKQIA--KQVMEDKVFDKVVMAEV 218
           R      V++ L          + +HG  G GK+ +  Q       +    +D +V  + 
Sbjct: 25  REYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKD 84

Query: 219 TENPDVQKIQDKLA---------SDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNI 269
           +                        L+     + +     + +C  L      L + D++
Sbjct: 85  SGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDV 144

Query: 270 WKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDMNSQKIFLIEVLSKEEA 329
                           +     Q+LR R  ++T+R   +      + +   +  L  +E 
Sbjct: 145 V-------------QEETIRWAQELRLR-CLVTTRDVEISNAASQTCEFIEVTSLEIDEC 190

Query: 330 LQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDALTQLRNS 389
             F E            + + ++ +    G P  L     + + K          +L + 
Sbjct: 191 YDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESR 250

Query: 390 NPREIHGMDANVCSSIELSYNFLESDEAKSLFLL 423
               +             SY  L     + + +L
Sbjct: 251 GLVGVE-------CITPYSYKSLAMALQRCVEVL 277

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 59.6 bits (143), Expect = 1e-09
 Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 2/76 (2%)

Query: 569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP 628
           L  L+L   + S +S  +  L  LQ L     ++ DV+++  L  +  LS  ++ I  L 
Sbjct: 309 LTYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT 367

Query: 629 LEIGQLAQLQLLDLSN 644
             +  L ++  L L++
Sbjct: 368 -PLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 56.5 bits (135), Expect = 1e-08
 Identities = 32/183 (17%), Positives = 63/183 (34%), Gaps = 29/183 (15%)

Query: 508 NLKEEIEKIIQKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTE 567
            + +     I      +S+    ++++        L  L L  N  S L        G  
Sbjct: 208 QISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLA----PLSGLT 263

Query: 568 DLKVLSLSGIHFSSLSSSLG---------------------HLINLQTLCLDWCQLEDVA 606
            L  L L     S++S   G                     +L NL  L L +  + D++
Sbjct: 264 KLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS 323

Query: 607 AIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELY 666
            +  L KL+ L F  + +  +   +  L  +  L   +   +  + P  ++  +R+ +L 
Sbjct: 324 PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHN-QISDLTP--LANLTRITQLG 379

Query: 667 MGD 669
           + D
Sbjct: 380 LND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.0 bits (92), Expect = 0.001
 Identities = 15/79 (18%), Positives = 29/79 (36%), Gaps = 6/79 (7%)

Query: 543 LKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQL 602
           +K +L   N    +  + L     + +  L    +   S+   + +L NL  +     QL
Sbjct: 25  MKTVLGKTNVTDTVSQTDL-----DQVTTLQADRLGIKSIDG-VEYLNNLTQINFSNNQL 78

Query: 603 EDVAAIGQLKKLEILSFRY 621
            D+  +  L KL  +    
Sbjct: 79  TDITPLKNLTKLVDILMNN 97

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 39.2 bits (90), Expect = 0.003
 Identities = 11/61 (18%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 585 SLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
           S   L  + TL  D   ++ +  +  L  L  ++F  + +  +   +  L +L  + ++N
Sbjct: 39  SQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDIT-PLKNLTKLVDILMNN 97

Query: 645 C 645
            
Sbjct: 98  N 98

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.3 bits (116), Expect = 1e-06
 Identities = 42/249 (16%), Positives = 85/249 (34%), Gaps = 17/249 (6%)

Query: 593 QTLCLDWCQLEDVAAIGQLKKLEILSFRYS--DIKQLPLEIGQLAQLQLLDLSNCSSLVV 650
           QTL L    L      G+L    +++FR     + Q   E     ++Q +DLSN    V 
Sbjct: 3   QTLDLTGKNLHP-DVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 651 IAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE-IQVQDAQMLPQ 709
               ++S+ S+L+ L +     +  ++      +LA+   L +L         +  +   
Sbjct: 62  TLHGILSQCSKLQNLSL-----EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL 116

Query: 710 DLVFVELPRYRICIGEAWGIWRANSETSRLVQLHGLENVSTLLENYGMKMLLKLTEDIRL 769
                 L    +     +         + + +     N+S   +N     L  L      
Sbjct: 117 LSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPN 176

Query: 770 EELTGVQNVVHELDDGE----GFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSL 825
                + + V   +D          L+HL + RC +I         +     P L++L +
Sbjct: 177 LVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDI----IPETLLELGEIPTLKTLQV 232

Query: 826 YKLINLEAI 834
           + ++    +
Sbjct: 233 FGIVPDGTL 241

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 0.003
 Identities = 19/88 (21%), Positives = 30/88 (34%), Gaps = 11/88 (12%)

Query: 545 LLLLLANGDSYLEISHLFFEGTED-------LKVLSLSG--IHFSSLSSSLGHLINLQTL 595
              LL+ G         F +           ++ + LS   I  S+L   L     LQ L
Sbjct: 17  TGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNL 76

Query: 596 CLDWCQLED--VAAIGQLKKLEILSFRY 621
            L+  +L D  V  + +   L  L+   
Sbjct: 77  SLEGLRLSDPIVNTLAKNSNLVRLNLSG 104

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 0.003
 Identities = 29/196 (14%), Positives = 52/196 (26%), Gaps = 20/196 (10%)

Query: 919  SSLVNLKVSKCQKIEEIVGHVGEEVKENRIAFSELKVLILNYLSRLTSFCLENYTLEFPS 978
            S L NL +   +  + IV  + +                 + L RL       ++     
Sbjct: 71   SKLQNLSLEGLRLSDPIVNTLAK----------------NSNLVRLNLSGCSGFSEFALQ 114

Query: 979  LERVSMIRCPNMKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSIMQKYYKEMIGF 1038
                S  R   +        +            E     +  G   N         +   
Sbjct: 115  TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRC 174

Query: 1039 RDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRL 1098
             ++ +L LS    LK     +       N L  L +  C ++       L      L+ L
Sbjct: 175  PNLVHLDLSDSVMLKNDCFQE---FFQLNYLQHLSLSRCYDIIPETLLELGEI-PTLKTL 230

Query: 1099 EVRNCDSLEEVLRLEE 1114
            +V        +  L+E
Sbjct: 231  QVFGIVPDGTLQLLKE 246

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 46.4 bits (108), Expect = 1e-05
 Identities = 13/71 (18%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP 628
           L+ L++S      L +       L+ L   +  L +V  +   + L+ L   Y+ +++ P
Sbjct: 286 LEELNVSNNKLIELPALPP---RLERLIASFNHLAEVPEL--PQNLKQLHVEYNPLREFP 340

Query: 629 LEIGQLAQLQL 639
                +  L++
Sbjct: 341 DIPESVEDLRM 351

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.6 bits (102), Expect = 1e-05
 Identities = 29/128 (22%), Positives = 50/128 (39%), Gaps = 5/128 (3%)

Query: 570 KVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED-VAAIGQLKKLEILSFRYSDIKQLP 628
           +VL L+    + L   L  L+ +  L L   +L     A+  L+ LE+L    + ++ + 
Sbjct: 1   RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 629 LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAEL 688
             +  L +LQ L L N       A   +    RL  L +  +     + EG        L
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGN--SLCQEEGIQERLAEML 116

Query: 689 KGLSKLTT 696
             +S + T
Sbjct: 117 PSVSSILT 124

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 42.3 bits (97), Expect = 3e-04
 Identities = 10/97 (10%), Positives = 37/97 (38%), Gaps = 12/97 (12%)

Query: 590 INLQTLCLDWCQLEDVAA---IGQLKKLEILSFRYSDI-----KQLPLEIGQLAQLQLLD 641
           +++Q+L +   +L D      +  L++ +++      +     K +   +     L  L+
Sbjct: 2   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 642 LSNC----SSLVVIAPNVISKFSRLEELYMGDSFPQW 674
           L +       +  +   + +   ++++L + +     
Sbjct: 62  LRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG 98

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 40.8 bits (94), Expect = 4e-04
 Identities = 11/56 (19%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 568 DLKVLSLSGI--HFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRY 621
           + + + L G+      + ++L  L   + L L    +E ++++  ++ L ILS   
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGR 79

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.0 bits (92), Expect = 8e-04
 Identities = 14/61 (22%), Positives = 21/61 (34%), Gaps = 1/61 (1%)

Query: 560 HLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSF 619
                    L  L       S +S  L  L NL  + L   Q+ DV+ +     L I++ 
Sbjct: 166 LTPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDVSPLANTSNLFIVTL 224

Query: 620 R 620
            
Sbjct: 225 T 225

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.8 bits (89), Expect = 0.002
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 588 HLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSN 644
            L  L TL L+  Q+ D+  +  L KL+ L    + I  L   +  L  L +L+L +
Sbjct: 154 RLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS 209

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

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]

 Score = 38.2 bits (87), Expect = 0.004
 Identities = 16/98 (16%), Positives = 37/98 (37%), Gaps = 2/98 (2%)

Query: 157 DFEAFDSRMKLF--QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVV 214
           D    D+R   F  +  +E L+  +  I  V G+   GK++++K    ++    ++  + 
Sbjct: 4   DTSPKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLR 63

Query: 215 MAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQL 252
             E       +    +L  +++       S     K +
Sbjct: 64  KFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNI 101

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 0.004
 Identities = 17/95 (17%), Positives = 32/95 (33%), Gaps = 1/95 (1%)

Query: 574 LSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQ 633
           L       L   +    +     LD   L     +       +L+ R S    L +    
Sbjct: 4   LKPEQVEQLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIEEN 63

Query: 634 LAQLQLLDLSNCS-SLVVIAPNVISKFSRLEELYM 667
           + +L  L+LSN     +    +++ K   L+ L +
Sbjct: 64  IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNL 98

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	1209
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.68
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.59
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.53
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.44
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.37
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.37
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.36
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.35
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.35
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.35
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.34
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.34
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.33
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.31
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.27
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.27
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.24
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.23
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.23
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.21
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.21
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.18
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.17
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.12
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.06
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.01
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.97
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.93
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.88
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.82
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.79
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.67
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.62
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.61
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.59
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.52
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.5
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.49
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.46
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.45
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.43
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.37
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.36
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.31
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.26
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.23
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.16
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.15
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.15
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.1
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.08
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.07
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.9
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.87
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.78
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.71
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.66
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.56
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.25
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.05
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.05
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.12
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.08
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.06
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.98
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.94
d1okkd2	207	GTPase domain of the signal recognition particle r	95.83
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.78
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.73
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.62
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.58
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.56
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.53
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.5
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.44
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.38
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.31
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.27
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.26
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.22
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.17
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.08
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.06
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.04
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.98
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.98
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	94.79
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.75
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.72
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	94.7
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.63
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	94.56
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	94.54
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.51
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.49
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	94.4
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.4
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.34
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.21
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.16
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.08
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	94.06
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.91
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	93.86
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	93.67
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	93.58
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.5
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	93.3
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.26
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	93.25
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	92.96
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	92.82
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	92.68
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.62
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	92.4
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	92.35
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	92.31
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	92.3
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.21
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	92.14
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.0
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.89
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	91.8
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	91.78
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	91.75
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	91.74
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.68
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	91.68
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	91.67
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	91.16
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	91.14
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	91.14
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.13
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	91.01
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	90.85
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	90.68
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	90.33
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	90.18
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	90.15
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	89.87
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	89.83
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	89.56
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	89.52
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	89.42
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	89.36
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	89.23
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	88.83
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	88.76
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	88.67
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	88.55
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	88.5
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.42
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	88.41
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	88.13
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	87.97
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	87.72
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	87.52
d2awna2	232	Maltose transport protein MalK, N-terminal domain	87.51
d1g2912	240	Maltose transport protein MalK, N-terminal domain	87.51
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	87.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	86.97
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	86.63
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	86.6
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	86.58
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	86.57
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.55
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	86.36
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	86.28
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	86.25
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	86.19
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	86.17
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	86.15
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	86.15
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	86.13
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	86.06
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	85.99
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	85.87
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	85.82
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	85.79
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	85.71
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	85.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	85.55
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	85.4
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	85.24
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	85.16
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	85.06
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	84.82
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	84.78
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	84.75
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	84.73
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	84.69
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	84.63
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	84.42
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	84.32
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	84.09
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	84.08
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	83.99
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	83.94
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	83.93
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	83.93
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	83.87
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	83.87
d1nrjb_	209	Signal recognition particle receptor beta-subunit	83.75
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	83.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	83.73
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	83.67
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	83.57
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	83.48
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	83.32
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	83.25
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	83.16
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	83.01
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	82.78
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	82.73
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	82.68
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	82.59
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	82.09
d2fh5b1	207	Signal recognition particle receptor beta-subunit	82.07
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	81.98
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	81.96
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	81.85
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	81.83
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	81.76
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	81.72
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	81.65
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	81.63
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	81.62
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	81.6
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	81.46
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	81.4
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	81.24
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	81.23
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	81.13
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	81.11
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	81.11
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	81.1
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	80.75
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	80.63
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	80.58
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	80.47
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	80.12
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	80.02

>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=100.00  E-value=2.5e-37  Score=334.37  Aligned_cols=245  Identities=13%  Similarity=0.110  Sum_probs=196.7

Q ss_pred             ccchhhHHHHHHHHHHHHh---CCCceEEEEEcCCCChHHHHHHHHHHHHh--hcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALR---NDKLNIIGVHGMGGVGKTTLVKQIAKQVM--EDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      ...++||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++..  .+.+|++++|++++..++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            3357799999999999986   45678999999999999999999999854  567899999999999988777766664


Q ss_pred             HHh---CCCCC------CCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEec
Q 038494          233 SDL---DLNFD------LNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       233 ~~l---~~~~~------~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                      ..+   +....      ..................++|+|+||||||+.++|+.+..              .||+|||||
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~--------------~~srilvTT  164 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE--------------LRLRCLVTT  164 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH--------------TTCEEEEEE
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc--------------cCceEEEEe
Confidence            433   22211      1111122223334444457999999999999988876521              689999999


Q ss_pred             cchhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHhcCChhHHHHHH
Q 038494          304 RSKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVANALKNKKLPVWKDAL  383 (1209)
Q Consensus       304 R~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~~~l~~~~~~~w~~~~  383 (1209)
                      |++.++.........|++++|+.+||++||.++++.....+..++++++|+++|+|+||||+++|+.++.++.+.|.+..
T Consensus       165 R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~  244 (277)
T d2a5yb3         165 RDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLN  244 (277)
T ss_dssp             SBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHH
T ss_pred             ehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHH
Confidence            99999875455567899999999999999999988666666778899999999999999999999999999999999999


Q ss_pred             HHHhcCCCccccCccccceeeeEEecccCCchhHHHHHHHh
Q 038494          384 TQLRNSNPREIHGMDANVCSSIELSYNFLESDEAKSLFLLC  424 (1209)
Q Consensus       384 ~~l~~~~~~~~~~~~~~v~~~l~~sy~~L~~~~~k~c~~~~  424 (1209)
                      ++++....       ..+..++.+||++||++ +|+||.++
T Consensus       245 ~~L~~~~~-------~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         245 NKLESRGL-------VGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             HHHHHHCS-------STTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             HHHhcCcH-------HHHHHHHHHHHhcccHH-HHHHHHhC
Confidence            98875432       56889999999999999 99999874

>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=99.68  E-value=1.9e-15  Score=172.78  Aligned_cols=79  Identities=23%  Similarity=0.377  Sum_probs=44.4

Q ss_pred             ccccccceEEeeccCCceeeccCCCCCcccCCCccEEEEecCCCCccccchhhHhhhccCcEEEEccCCchhhhhhcccc
Q 038494         1036 IGFRDIWYLQLSHFPRLKEIWHGQALPVSFFNNLARLVVDDCTNMSSAIPANLLRCLNNLRRLEVRNCDSLEEVLRLEEL 1115 (1209)
Q Consensus      1036 ~~~~~L~~L~l~~~~~L~~~~~~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~ 1115 (1209)
                      ..+++++.|+++++ +++.+     .++..+++|++|++++| .+.. ++  .+.++++|++|++++|. ++.+++    
T Consensus       304 ~~~~~l~~L~ls~n-~l~~l-----~~l~~l~~L~~L~L~~n-~l~~-l~--~l~~l~~L~~L~l~~N~-l~~l~~----  368 (384)
T d2omza2         304 SNLKNLTYLTLYFN-NISDI-----SPVSSLTKLQRLFFANN-KVSD-VS--SLANLTNINWLSAGHNQ-ISDLTP----  368 (384)
T ss_dssp             GGCTTCSEEECCSS-CCSCC-----GGGGGCTTCCEEECCSS-CCCC-CG--GGGGCTTCCEEECCSSC-CCBCGG----
T ss_pred             chhcccCeEECCCC-CCCCC-----cccccCCCCCEEECCCC-CCCC-Ch--hHcCCCCCCEEECCCCc-CCCChh----
Confidence            34455555555553 34433     12455667777777665 4443 23  24667777777777665 655532    


Q ss_pred             cccccCCCccccccccccccc
Q 038494         1116 NADKEHIGPMFPKLSNLRLID 1136 (1209)
Q Consensus      1116 ~~~~~~~~~~l~~L~~L~i~~ 1136 (1209)
                             +..+++|+.|+|++
T Consensus       369 -------l~~l~~L~~L~L~~  382 (384)
T d2omza2         369 -------LANLTRITQLGLND  382 (384)
T ss_dssp             -------GTTCTTCSEEECCC
T ss_pred             -------hccCCCCCEeeCCC
Confidence                   23566777777664

>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=99.59  E-value=5.7e-14  Score=160.21  Aligned_cols=303  Identities=16%  Similarity=0.170  Sum_probs=179.2

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ..+++++.+.++.+..++....+++|++|++++|  .+..+++  ++++++|++|++++|.+..+++ ++.+++|++|++
T Consensus        43 l~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N--~l~~l~~--l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~  117 (384)
T d2omza2          43 LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNN--QLTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  117 (384)
T ss_dssp             HTTCCEEECCSSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEEC
T ss_pred             hCCCCEEECCCCCCCCccccccCCCCCEEeCcCC--cCCCCcc--ccCCcccccccccccccccccc-cccccccccccc
Confidence            3467888888888887765557888888888887  4555554  6788888888888888887764 788888888888


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccch--------------------hccCCCCCCEEeccCCCCCcccCchhhc
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPL--------------------EIGQLAQLQLLDLSNCSSLVVIAPNVIS  657 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~--------------------~i~~L~~L~~L~l~~~~~l~~~~~~~l~  657 (1209)
                      +++.+..+........+..+....+.+..+..                    .+............. +... . .....
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~-~-~~~~~  194 (384)
T d2omza2         118 FNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISS-NKVS-D-ISVLA  194 (384)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCS-SCCC-C-CGGGG
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccc-cccc-c-ccccc
Confidence            88877766444555555555554433221111                    111122222222222 1111 1 12255


Q ss_pred             CCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEEEcccCccccCCCCCc
Q 038494          658 KFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRICIGEAWGIWRANSETS  737 (1209)
Q Consensus       658 ~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~  737 (1209)
                      .+++++.+.++++...          .+......++|+.|+++++....++.-....+|+.+.+..+...          
T Consensus       195 ~l~~~~~l~l~~n~i~----------~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~----------  254 (384)
T d2omza2         195 KLTNLESLIATNNQIS----------DITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQIS----------  254 (384)
T ss_dssp             GCTTCSEEECCSSCCC----------CCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCC----------
T ss_pred             cccccceeeccCCccC----------CCCcccccCCCCEEECCCCCCCCcchhhcccccchhccccCccC----------
Confidence            6677777777654321          11223455677777777776665544334555555554221100          


Q ss_pred             cEEEEecCCCcchhhhHHHHHHHhcccceeeeccccccccccccccCCCCccCCcEEEEecccCceeeeccCCccccccC
Q 038494          738 RLVQLHGLENVSTLLENYGMKMLLKLTEDIRLEELTGVQNVVHELDDGEGFPRLKHLWVERCSEILHIVGSVGRVHRKVF  817 (1209)
Q Consensus       738 ~~l~l~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~  817 (1209)
                            .+      ..    ....++|+.+++..... .    .+.++..++.++.+.+.++.- ..      ......+
T Consensus       255 ------~~------~~----~~~~~~L~~L~l~~~~l-~----~~~~~~~~~~l~~l~~~~n~l-~~------~~~~~~~  306 (384)
T d2omza2         255 ------NL------AP----LSGLTKLTELKLGANQI-S----NISPLAGLTALTNLELNENQL-ED------ISPISNL  306 (384)
T ss_dssp             ------CC------GG----GTTCTTCSEEECCSSCC-C----CCGGGTTCTTCSEEECCSSCC-SC------CGGGGGC
T ss_pred             ------CC------Cc----ccccccCCEeeccCccc-C----CCCcccccccccccccccccc-cc------ccccchh
Confidence                  00      00    01124566666644321 1    222356677888888876642 11      1123557


Q ss_pred             CcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHHHHhhcccccEEEEeccccccc
Q 038494          818 PLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFSIARNLLRLQKVKVASCNKLEM  887 (1209)
Q Consensus       818 ~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~  887 (1209)
                      ++++.|+++++ +++++..     ...+|+|++|++++| +++.++   .+.++++|++|++++| +++.
T Consensus       307 ~~l~~L~ls~n-~l~~l~~-----l~~l~~L~~L~L~~n-~l~~l~---~l~~l~~L~~L~l~~N-~l~~  365 (384)
T d2omza2         307 KNLTYLTLYFN-NISDISP-----VSSLTKLQRLFFANN-KVSDVS---SLANLTNINWLSAGHN-QISD  365 (384)
T ss_dssp             TTCSEEECCSS-CCSCCGG-----GGGCTTCCEEECCSS-CCCCCG---GGGGCTTCCEEECCSS-CCCB
T ss_pred             cccCeEECCCC-CCCCCcc-----cccCCCCCEEECCCC-CCCCCh---hHcCCCCCCEEECCCC-cCCC
Confidence            88999999874 5655421     256899999999998 677764   3567899999999876 4444

>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=99.53  E-value=3.9e-13  Score=147.46  Aligned_cols=151  Identities=19%  Similarity=0.289  Sum_probs=103.7

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEE
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  618 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~  618 (1209)
                      ..++++..+.  ....+|..+   .+.+++|+|++|.++.+|+ +|.++++|++|++++|.+..+  ..|.++++|++|+
T Consensus        11 ~~~~~~C~~~--~L~~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~   85 (305)
T d1xkua_          11 HLRVVQCSDL--GLEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY   85 (305)
T ss_dssp             ETTEEECTTS--CCCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             cCCEEEecCC--CCCccCCCC---CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEec
Confidence            3455555443  355566544   2578888898888888876 688888899999988888777  4588888999999


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      +++|+++.+|..+  ...|..|+... +.+..++...+.....+..+....+...      ........+..+++|+.+.
T Consensus        86 l~~n~l~~l~~~~--~~~l~~L~~~~-n~l~~l~~~~~~~~~~~~~l~~~~n~~~------~~~~~~~~~~~l~~L~~l~  156 (305)
T d1xkua_          86 LSKNQLKELPEKM--PKTLQELRVHE-NEITKVRKSVFNGLNQMIVVELGTNPLK------SSGIENGAFQGMKKLSYIR  156 (305)
T ss_dssp             CCSSCCSBCCSSC--CTTCCEEECCS-SCCCBBCHHHHTTCTTCCEEECCSSCCC------GGGBCTTGGGGCTTCCEEE
T ss_pred             ccCCccCcCccch--hhhhhhhhccc-cchhhhhhhhhhcccccccccccccccc------ccCCCccccccccccCccc
Confidence            9888888888643  45788888887 5666776666667777777776554211      1111223456667777777


Q ss_pred             eeccCCCC
Q 038494          699 IQVQDAQM  706 (1209)
Q Consensus       699 l~~~~~~~  706 (1209)
                      +..+....
T Consensus       157 l~~n~l~~  164 (305)
T d1xkua_         157 IADTNITT  164 (305)
T ss_dssp             CCSSCCCS
T ss_pred             cccCCccc
Confidence            76655443

>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=99.44  E-value=1.6e-12  Score=138.92  Aligned_cols=188  Identities=23%  Similarity=0.280  Sum_probs=152.7

Q ss_pred             EEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcc
Q 038494          522 IAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       522 r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~  601 (1209)
                      ..+.-+++.+..+|.... +++++|++++|  .+..++...|.++++|++|+|++|.++.+|. ++.+++|++|++++|.
T Consensus        13 ~~v~C~~~~L~~iP~~lp-~~l~~L~Ls~N--~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~N~   88 (266)
T d1p9ag_          13 LEVNCDKRNLTALPPDLP-KDTTILHLSEN--LLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSHNQ   88 (266)
T ss_dssp             CEEECTTSCCSSCCSCCC-TTCCEEECTTS--CCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCSSC
T ss_pred             eEEEccCCCCCeeCcCcC-cCCCEEECcCC--cCCCcCHHHhhcccccccccccccccccccc-cccccccccccccccc
Confidence            345566677888876542 68999999998  5778888888999999999999999998875 6789999999999999


Q ss_pred             cCCc-ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccC
Q 038494          602 LEDV-AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       602 l~~l-~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      ++.. ..+.++++|++|+++++.+..++ ..+..+.++++|++.+ +.+..+++..+..+++|+.++++++....     
T Consensus        89 l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~-n~l~~l~~~~~~~l~~l~~l~l~~N~l~~-----  162 (266)
T d1p9ag_          89 LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKLEKLSLANNNLTE-----  162 (266)
T ss_dssp             CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTT-SCCCCCCTTTTTTCTTCCEEECTTSCCSC-----
T ss_pred             ccccccccccccccccccccccccceeeccccccccccccccccc-cccceeccccccccccchhcccccccccc-----
Confidence            9887 77889999999999999888765 4467889999999998 67888888878889999999998874321     


Q ss_pred             CCccchhhhCCCCCCCEEEeeccCCCCCCccc-ccCCCCeEEEE
Q 038494          680 GSNASLAELKGLSKLTTLEIQVQDAQMLPQDL-VFVELPRYRIC  722 (1209)
Q Consensus       680 ~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  722 (1209)
                         .....+..+++|+.|+++.+.+..+|.+. ....|+.|.+.
T Consensus       163 ---~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~  203 (266)
T d1p9ag_         163 ---LPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (266)
T ss_dssp             ---CCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             ---cCccccccccccceeecccCCCcccChhHCCCCCCCEEEec
Confidence               11234678899999999999999888763 56667776654

>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=99.37  E-value=5.9e-12  Score=128.77  Aligned_cols=164  Identities=25%  Similarity=0.382  Sum_probs=132.9

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      ..++++.+.++.+..++....+++|++|++++|  .+..++.  ++++++|++|++++|.++.+| .++.+++|++|+++
T Consensus        46 ~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n--~i~~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGN--KLTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HTCCEEECTTSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             cCccEEECcCCCCCCchhHhhCCCCCEEeCCCc--cccCccc--cccCccccccccccccccccc-cccccccccccccc
Confidence            467888999988888876667899999999888  3555553  578999999999999999887 48889999999999


Q ss_pred             CcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccccc
Q 038494          599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVE  678 (1209)
Q Consensus       599 ~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~  678 (1209)
                      +|.+..+..+..+++|+.+++++|.++..+ .+.++++|+++++++ +.++.+++  ++++++|++|++++|.+.     
T Consensus       121 ~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~-n~l~~i~~--l~~l~~L~~L~Ls~N~i~-----  191 (210)
T d1h6ta2         121 HNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLED-NQISDIVP--LAGLTKLQNLYLSKNHIS-----  191 (210)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCS-SCCCCCGG--GTTCTTCCEEECCSSCCC-----
T ss_pred             cccccccccccccccccccccccccccccc-ccccccccccccccc-cccccccc--ccCCCCCCEEECCCCCCC-----
Confidence            999888888889999999999998887654 577889999999998 46666653  888999999999876421     


Q ss_pred             CCCccchhhhCCCCCCCEEEeec
Q 038494          679 GGSNASLAELKGLSKLTTLEIQV  701 (1209)
Q Consensus       679 ~~~~~~l~~L~~l~~L~~L~l~~  701 (1209)
                           .+..+.++++|+.|+++.
T Consensus       192 -----~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         192 -----DLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             -----BCGGGTTCTTCSEEEEEE
T ss_pred             -----CChhhcCCCCCCEEEccC
Confidence                 134578888999998864

>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=99.37  E-value=2.9e-12  Score=136.80  Aligned_cols=175  Identities=17%  Similarity=0.169  Sum_probs=148.6

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCc
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQ  593 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~  593 (1209)
                      .++.+++++.+++|.+..++..  ..+++|++|++.+|.  +..++.  +..+++|++|++++|.++..|..+..+++|+
T Consensus        28 ~lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~--l~~l~~--~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~  103 (266)
T d1p9ag_          28 DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE--LTKLQV--DGTLPVLGTLDLSHNQLQSLPLLGQTLPALT  103 (266)
T ss_dssp             CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC--CCEEEC--CSCCTTCCEEECCSSCCSSCCCCTTTCTTCC
T ss_pred             CcCcCCCEEECcCCcCCCcCHHHhhcccccccccccccc--cccccc--ccccccccccccccccccccccccccccccc
Confidence            3567899999999999988753  479999999999984  555654  4689999999999999999999999999999


Q ss_pred             EEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          594 TLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       594 ~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +|+++++.+..+  ..+..+.++++|++++|.+..+|.. +..+++|++|++++ +.++.++++.+..+++|++|++++|
T Consensus       104 ~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~-N~l~~~~~~~~~~l~~L~~L~Ls~N  182 (266)
T d1p9ag_         104 VLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLLQEN  182 (266)
T ss_dssp             EEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             cccccccccceeeccccccccccccccccccccceeccccccccccchhccccc-ccccccCccccccccccceeecccC
Confidence            999999998887  6778999999999999999988765 56789999999999 6888888888899999999999987


Q ss_pred             CCccccccCCCccchhhhCCCCCCCEEEeeccCC
Q 038494          671 FPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       671 ~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                      .+.         .....+..+++|+.|+++++..
T Consensus       183 ~L~---------~lp~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         183 SLY---------TIPKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             CCC---------CCCTTTTTTCCCSEEECCSCCB
T ss_pred             CCc---------ccChhHCCCCCCCEEEecCCCC
Confidence            532         1223455678999999998764

>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=99.36  E-value=6.9e-12  Score=127.08  Aligned_cols=143  Identities=18%  Similarity=0.285  Sum_probs=96.5

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      .+++++.+.++.+..++....+++|++|++++|  .+..+++  ++++++|++|++++|.+..++. +..+++|++|+++
T Consensus        40 ~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N--~l~~~~~--l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~  114 (199)
T d2omxa2          40 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNN--QLTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  114 (199)
T ss_dssp             TTCCEEECTTSCCCCCTTGGGCTTCCEEECCSS--CCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECC
T ss_pred             cCCCEEECCCCCCCCccccccCCCcCcCccccc--cccCccc--ccCCcccccccccccccccccc-ccccccccccccc
Confidence            466777777777776665556777777777766  3444443  5677777777777777766653 6677777777777


Q ss_pred             CcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       599 ~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +|.+..+..+..+++|+.|++++|.+..+| .+..+++|++|++.+ +.++.+++  ++++++|++|++++|
T Consensus       115 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~-n~l~~l~~--l~~l~~L~~L~ls~N  182 (199)
T d2omxa2         115 NNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSS-NQVTDLKP--LANLTTLERLDISSN  182 (199)
T ss_dssp             SSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCS-SCCCCCGG--GTTCTTCCEEECCSS
T ss_pred             ccccccccccchhhhhHHhhhhhhhhcccc-ccccccccccccccc-ccccCCcc--ccCCCCCCEEECCCC
Confidence            777666666677777777777777666654 466677777777776 35555543  667777777777665

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.35  E-value=4.3e-11  Score=133.97  Aligned_cols=118  Identities=23%  Similarity=0.278  Sum_probs=65.4

Q ss_pred             CCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCC
Q 038494          567 EDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCS  646 (1209)
Q Consensus       567 ~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~  646 (1209)
                      ++|++|++++|.++.+|..+   .+|+.|++++|.++.++.+.  ..|++|++++|.+..+|. ++++++|++|+++++ 
T Consensus        58 ~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~lp--~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~l~~~-  130 (353)
T d1jl5a_          58 PHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSDLP--PLLEYLGVSNNQLEKLPE-LQNSSFLKIIDVDNN-  130 (353)
T ss_dssp             TTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCSCC--TTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSS-
T ss_pred             CCCCEEECCCCCCcccccch---hhhhhhhhhhcccchhhhhc--cccccccccccccccccc-hhhhccceeeccccc-
Confidence            45666777777776666543   35666667766665553221  347777777777777664 566777777777663 


Q ss_pred             CCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEEeeccCCC
Q 038494          647 SLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       647 ~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~  705 (1209)
                      .+...+.    ....+..+.+.....          .....+..++.++.|.+..+...
T Consensus       131 ~~~~~~~----~~~~l~~l~~~~~~~----------~~~~~l~~l~~l~~L~l~~n~~~  175 (353)
T d1jl5a_         131 SLKKLPD----LPPSLEFIAAGNNQL----------EELPELQNLPFLTAIYADNNSLK  175 (353)
T ss_dssp             CCSCCCC----CCTTCCEEECCSSCC----------SSCCCCTTCTTCCEEECCSSCCS
T ss_pred             ccccccc----ccccccchhhccccc----------cccccccccccceeccccccccc
Confidence            3333322    134445555433210          11223455566666666655443

>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=99.35  E-value=6.3e-12  Score=127.39  Aligned_cols=163  Identities=20%  Similarity=0.291  Sum_probs=132.5

Q ss_pred             CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEE
Q 038494          538 LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEIL  617 (1209)
Q Consensus       538 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L  617 (1209)
                      .+++++++|++.++.  +..+..  ++.+++|++|++++|.++.++. ++++++|++|++++|.+..++.+.++++|++|
T Consensus        37 ~~l~~l~~L~l~~~~--i~~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L  111 (199)
T d2omxa2          37 TDLDQVTTLQADRLG--IKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGL  111 (199)
T ss_dssp             HHHTTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEE
T ss_pred             HHhcCCCEEECCCCC--CCCccc--cccCCCcCcCccccccccCccc-ccCCcccccccccccccccccccccccccccc
Confidence            357899999999884  444532  5789999999999999998876 99999999999999999888889999999999


Q ss_pred             EccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEE
Q 038494          618 SFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTL  697 (1209)
Q Consensus       618 ~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L  697 (1209)
                      +++++....++ .+.++++|+.|++++ +.+..++.  +..+++|+.|++.+|...          .+..+.++++|+.|
T Consensus       112 ~l~~~~~~~~~-~~~~l~~L~~L~l~~-n~l~~~~~--l~~~~~L~~L~l~~n~l~----------~l~~l~~l~~L~~L  177 (199)
T d2omxa2         112 TLFNNQITDID-PLKNLTNLNRLELSS-NTISDISA--LSGLTSLQQLNFSSNQVT----------DLKPLANLTTLERL  177 (199)
T ss_dssp             ECCSSCCCCCG-GGTTCTTCSEEECCS-SCCCCCGG--GTTCTTCSEEECCSSCCC----------CCGGGTTCTTCCEE
T ss_pred             ccccccccccc-ccchhhhhHHhhhhh-hhhccccc--cccccccccccccccccc----------CCccccCCCCCCEE
Confidence            99998877664 578899999999998 45666542  889999999999876421          13457889999999


Q ss_pred             EeeccCCCCCCcccccCCCCeE
Q 038494          698 EIQVQDAQMLPQDLVFVELPRY  719 (1209)
Q Consensus       698 ~l~~~~~~~~~~~~~~~~L~~L  719 (1209)
                      +++++.+..++.-..+++|+.|
T Consensus       178 ~ls~N~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         178 DISSNKVSDISVLAKLTNLESL  199 (199)
T ss_dssp             ECCSSCCCCCGGGGGCTTCSEE
T ss_pred             ECCCCCCCCCccccCCCCCCcC
Confidence            9999988776543355555543

>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=99.35  E-value=3.1e-11  Score=131.96  Aligned_cols=167  Identities=20%  Similarity=0.239  Sum_probs=114.4

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccc-cccccCCCCCcEEeccCcc
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSL-SSSLGHLINLQTLCLDWCQ  601 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~l-p~~i~~l~~L~~L~l~~~~  601 (1209)
                      .+.-.+..+..+|... .+++++|++++|  .+..+++..|.++++|++|+++++.+..+ |..|.++++|++|++++|.
T Consensus        14 ~~~C~~~~L~~lP~~l-~~~l~~L~Ls~N--~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~   90 (305)
T d1xkua_          14 VVQCSDLGLEKVPKDL-PPDTALLDLQNN--KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ   90 (305)
T ss_dssp             EEECTTSCCCSCCCSC-CTTCCEEECCSS--CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCCCccCCCC-CCCCCEEECcCC--cCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCc
Confidence            3444444567777654 367888888887  57778877788888999999999888877 4578888999999999988


Q ss_pred             cCCcccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCC-CcccCchhhcCCCCCcEEECCCCCCccccccC
Q 038494          602 LEDVAAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSS-LVVIAPNVISKFSRLEELYMGDSFPQWDKVEG  679 (1209)
Q Consensus       602 l~~l~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~-l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~  679 (1209)
                      ++.++. .....+..|++..+.+..++.. +.....+..++...+.. ........+..+++|+.+.+.++....     
T Consensus        91 l~~l~~-~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~-----  164 (305)
T d1xkua_          91 LKELPE-KMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITT-----  164 (305)
T ss_dssp             CSBCCS-SCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCS-----
T ss_pred             cCcCcc-chhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccc-----
Confidence            887732 2335788888888888877654 45567777887766322 222233446778888888887653210     


Q ss_pred             CCccchhhhCCCCCCCEEEeeccCC
Q 038494          680 GSNASLAELKGLSKLTTLEIQVQDA  704 (1209)
Q Consensus       680 ~~~~~l~~L~~l~~L~~L~l~~~~~  704 (1209)
                           + .....++|+.|+++++..
T Consensus       165 -----l-~~~~~~~L~~L~l~~n~~  183 (305)
T d1xkua_         165 -----I-PQGLPPSLTELHLDGNKI  183 (305)
T ss_dssp             -----C-CSSCCTTCSEEECTTSCC
T ss_pred             -----c-CcccCCccCEEECCCCcC
Confidence                 0 012246788888766544

>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=99.34  E-value=3.6e-12  Score=140.12  Aligned_cols=127  Identities=19%  Similarity=0.311  Sum_probs=93.4

Q ss_pred             CccEEEeccCCCcc-cccChhhhcCCCCCcEEEecC-cccc-cccccccCCCCCcEEeccCcccCCc--ccccCCCCCCE
Q 038494          542 QLKLLLLLANGDSY-LEISHLFFEGTEDLKVLSLSG-IHFS-SLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEI  616 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~-~~~~~~~~~~l~~Lr~L~L~~-~~i~-~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~  616 (1209)
                      +++.|++.++.... ..+|.. +.++++|++|+|++ |.+. .+|.+|++|++|++|++++|.+..+  ..+..+.+|++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~-l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChH-HhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcc
Confidence            56667777654221 245554 47899999999986 5666 7888899999999999999988776  66888889999


Q ss_pred             EEccCCCCC-ccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCC-cEEECCCC
Q 038494          617 LSFRYSDIK-QLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRL-EELYMGDS  670 (1209)
Q Consensus       617 L~l~~~~~~-~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L-~~L~l~~~  670 (1209)
                      +++++|.+. .+|..++++++|+++++++ +.+....+..+..+.++ +.+.++.+
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~-n~l~~~ip~~~~~l~~l~~~l~~~~n  184 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDG-NRISGAIPDSYGSFSKLFTSMTISRN  184 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCS-SCCEEECCGGGGCCCTTCCEEECCSS
T ss_pred             cccccccccccCchhhccCcccceeeccc-cccccccccccccccccccccccccc
Confidence            999888554 6788889999999999988 44443333447777665 66776654

>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=99.34  E-value=7.3e-12  Score=137.56  Aligned_cols=105  Identities=25%  Similarity=0.298  Sum_probs=86.8

Q ss_pred             CCCCcEEEecCcccc---cccccccCCCCCcEEeccC-cccC-Cc-ccccCCCCCCEEEccCCCCCcc-chhccCCCCCC
Q 038494          566 TEDLKVLSLSGIHFS---SLSSSLGHLINLQTLCLDW-CQLE-DV-AAIGQLKKLEILSFRYSDIKQL-PLEIGQLAQLQ  638 (1209)
Q Consensus       566 l~~Lr~L~L~~~~i~---~lp~~i~~l~~L~~L~l~~-~~l~-~l-~~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~  638 (1209)
                      -.+++.|+|+++.+.   .+|.++++|++|++|+|++ |.+. .+ ..+++|++|++|++++|.+..+ |..+..+.+|+
T Consensus        49 ~~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          49 TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             cEEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhc
Confidence            347889999999887   5889999999999999987 5665 45 7899999999999999998865 55588899999


Q ss_pred             EEeccCCCCCcccCchhhcCCCCCcEEECCCCC
Q 038494          639 LLDLSNCSSLVVIAPNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       639 ~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~  671 (1209)
                      +++++.+.....+| ..++++++|++++++++.
T Consensus       129 ~l~l~~N~~~~~~p-~~l~~l~~L~~l~l~~n~  160 (313)
T d1ogqa_         129 TLDFSYNALSGTLP-PSISSLPNLVGITFDGNR  160 (313)
T ss_dssp             EEECCSSEEESCCC-GGGGGCTTCCEEECCSSC
T ss_pred             ccccccccccccCc-hhhccCcccceeeccccc
Confidence            99999855444444 448999999999998764

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.33  E-value=6.6e-11  Score=132.42  Aligned_cols=173  Identities=22%  Similarity=0.237  Sum_probs=120.4

Q ss_pred             CCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEecc
Q 038494          519 KGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLD  598 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~  598 (1209)
                      .+++++.++++.+..+|+.  .++|++|++++|  .+..+|.    .+.+|+.|+++++.++.++.-   ...|++|+++
T Consensus        38 ~~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N--~l~~lp~----~~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~  106 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL--PPHLESLVASCN--SLTELPE----LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVS  106 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC--CTTCSEEECCSS--CCSSCCC----CCTTCCEEECCSSCCSCCCSC---CTTCCEEECC
T ss_pred             cCCCEEEeCCCCCCCCCCC--CCCCCEEECCCC--CCccccc----chhhhhhhhhhhcccchhhhh---cccccccccc
Confidence            3577899999999988864  579999999987  4667764    356899999999998877642   2469999999


Q ss_pred             CcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCcccc--
Q 038494          599 WCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDK--  676 (1209)
Q Consensus       599 ~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~--  676 (1209)
                      +|.+..++.++.+++|++|+++++.+...|..   ...+..+.+..+... ..  ..++.++.++.+.+..+......  
T Consensus       107 ~n~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~---~~~l~~l~~~~~~~~-~~--~~l~~l~~l~~L~l~~n~~~~~~~~  180 (353)
T d1jl5a_         107 NNQLEKLPELQNSSFLKIIDVDNNSLKKLPDL---PPSLEFIAAGNNQLE-EL--PELQNLPFLTAIYADNNSLKKLPDL  180 (353)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCS-SC--CCCTTCTTCCEEECCSSCCSSCCCC
T ss_pred             ccccccccchhhhccceeeccccccccccccc---cccccchhhcccccc-cc--ccccccccceecccccccccccccc
Confidence            99999887788999999999999988777654   345667776653322 22  22667888888888765421100  


Q ss_pred             --------ccCCCccchhhhCCCCCCCEEEeeccCCCCCC
Q 038494          677 --------VEGGSNASLAELKGLSKLTTLEIQVQDAQMLP  708 (1209)
Q Consensus       677 --------~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~  708 (1209)
                              ........+.....++.|+.+.++.+....++
T Consensus       181 ~~~~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~  220 (353)
T d1jl5a_         181 PLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLP  220 (353)
T ss_dssp             CTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCC
T ss_pred             cccccccccccccccccccccccccccccccccccccccc
Confidence                    00011112334556677788887776554443

>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=99.31  E-value=1.2e-11  Score=126.38  Aligned_cols=165  Identities=23%  Similarity=0.318  Sum_probs=135.9

Q ss_pred             CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEE
Q 038494          539 ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILS  618 (1209)
Q Consensus       539 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~  618 (1209)
                      ++.+++.|++.++.  +..++.  ++.+++|++|++++|.++.++. ++.+++|++|++++|.++.++.+.++++|+.|+
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 ELNSIDQIIANNSD--IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLS  118 (210)
T ss_dssp             HHHTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             HhcCccEEECcCCC--CCCchh--HhhCCCCCEEeCCCccccCccc-cccCccccccccccccccccccccccccccccc
Confidence            46789999998874  445543  5789999999999999999875 789999999999999999998899999999999


Q ss_pred             ccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccccCCCccchhhhCCCCCCCEEE
Q 038494          619 FRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKVEGGSNASLAELKGLSKLTTLE  698 (1209)
Q Consensus       619 l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~  698 (1209)
                      +++|.+..++ .+..+++|++++++. +.+...+.  +.++++|++++++++...          .+..+.++++|+.|+
T Consensus       119 l~~~~~~~~~-~l~~l~~l~~l~~~~-n~l~~~~~--~~~l~~L~~l~l~~n~l~----------~i~~l~~l~~L~~L~  184 (210)
T d1h6ta2         119 LEHNGISDIN-GLVHLPQLESLYLGN-NKITDITV--LSRLTKLDTLSLEDNQIS----------DIVPLAGLTKLQNLY  184 (210)
T ss_dssp             CTTSCCCCCG-GGGGCTTCCEEECCS-SCCCCCGG--GGGCTTCSEEECCSSCCC----------CCGGGTTCTTCCEEE
T ss_pred             cccccccccc-ccccccccccccccc-cccccccc--cccccccccccccccccc----------ccccccCCCCCCEEE
Confidence            9999888775 588899999999988 55665442  778999999999876421          134578899999999


Q ss_pred             eeccCCCCCCcccccCCCCeEEEE
Q 038494          699 IQVQDAQMLPQDLVFVELPRYRIC  722 (1209)
Q Consensus       699 l~~~~~~~~~~~~~~~~L~~L~l~  722 (1209)
                      ++.+.+..++.-..+.+|+.|.++
T Consensus       185 Ls~N~i~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         185 LSKNHISDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             CCSSCCCBCGGGTTCTTCSEEEEE
T ss_pred             CCCCCCCCChhhcCCCCCCEEEcc
Confidence            999988877654466778887764

>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=99.27  E-value=3.3e-11  Score=125.06  Aligned_cols=100  Identities=25%  Similarity=0.397  Sum_probs=61.1

Q ss_pred             cCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEecc
Q 038494          564 EGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLS  643 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~  643 (1209)
                      ..+.+|+.|++.+|.+++++ .+.++++|++|++++|.+..+..+.++++|+++++++|.++.++ .+.++++|++++++
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~l~  115 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLT  115 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECT
T ss_pred             HHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCceeeccccccccccccccccccccccccc-cccccccccccccc
Confidence            44566777777777777664 46677777777777777666655667777777777766666554 35666667777666


Q ss_pred             CCCCCcccCchhhcCCCCCcEEECC
Q 038494          644 NCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       644 ~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      .|. ......  +...+.++.+.++
T Consensus       116 ~~~-~~~~~~--~~~~~~~~~l~~~  137 (227)
T d1h6ua2         116 STQ-ITDVTP--LAGLSNLQVLYLD  137 (227)
T ss_dssp             TSC-CCCCGG--GTTCTTCCEEECC
T ss_pred             ccc-ccccch--hccccchhhhhch
Confidence            532 222211  3444555555443

>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=99.27  E-value=8.6e-11  Score=126.66  Aligned_cols=96  Identities=21%  Similarity=0.278  Sum_probs=49.8

Q ss_pred             EecCcccccccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCc
Q 038494          573 SLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLV  649 (1209)
Q Consensus       573 ~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~  649 (1209)
                      +.++..++.+|..+.  .++++|+|++|.++.+  ..+.++++|++|+++++.+..++.. +..+..+.++....++.+.
T Consensus        17 ~c~~~~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~   94 (284)
T d1ozna_          17 SCPQQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR   94 (284)
T ss_dssp             ECCSSCCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC
T ss_pred             EcCCCCCCccCCCCC--CCCCEEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccc
Confidence            344444555554333  3455555555555554  3355555555555555555544332 3445555555555445555


Q ss_pred             ccCchhhcCCCCCcEEECCCC
Q 038494          650 VIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       650 ~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      .+++..+.++++|++|+++.+
T Consensus        95 ~l~~~~~~~l~~L~~L~l~~n  115 (284)
T d1ozna_          95 SVDPATFHGLGRLHTLHLDRC  115 (284)
T ss_dssp             CCCTTTTTTCTTCCEEECTTS
T ss_pred             cccchhhcccccCCEEecCCc
Confidence            555555555666666665543

>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=99.24  E-value=1.2e-10  Score=120.72  Aligned_cols=186  Identities=19%  Similarity=0.263  Sum_probs=148.3

Q ss_pred             cCCeEEEEccCCCCccCCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEec
Q 038494          518 QKGAIAISIPYGDIQELPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCL  597 (1209)
Q Consensus       518 ~~~~r~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l  597 (1209)
                      ..+++.+++.++.+..++....+++|++|++++|.  +..+.+  +.++++|++++++++.++.++ .+..+++|+++.+
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~--i~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l  114 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ--ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDL  114 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEEC
T ss_pred             cCCcCEEECCCCCCCcchhHhcCCCCcEeecCCce--eecccc--ccccccccccccccccccccc-ccccccccccccc
Confidence            35789999999999988766689999999999883  445543  689999999999999998886 4889999999999


Q ss_pred             cCcccCCcccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECCCCCCccccc
Q 038494          598 DWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMGDSFPQWDKV  677 (1209)
Q Consensus       598 ~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  677 (1209)
                      ++|....+..+.....+..+.++++.+...+ .+.+.++|++|++.+| .+...++  ++++++|++|++++|...    
T Consensus       115 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L~Ls~n~l~----  186 (227)
T d1h6ua2         115 TSTQITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNA-QVSDLTP--LANLSKLTTLKADDNKIS----  186 (227)
T ss_dssp             TTSCCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCC----
T ss_pred             ccccccccchhccccchhhhhchhhhhchhh-hhcccccccccccccc-ccccchh--hcccccceecccCCCccC----
Confidence            9999888877888899999999888776554 4677889999999884 4544433  788999999999876421    


Q ss_pred             cCCCccchhhhCCCCCCCEEEeeccCCCCCCcccccCCCCeEEEE
Q 038494          678 EGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDLVFVELPRYRIC  722 (1209)
Q Consensus       678 ~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  722 (1209)
                            .+..+..+++|+.|+++.+.+..++.-..+.+|+.|.+.
T Consensus       187 ------~l~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         187 ------DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             ------CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEE
T ss_pred             ------CChhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEee
Confidence                  134577889999999999988777654466677776653

>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=99.23  E-value=8.5e-11  Score=126.71  Aligned_cols=195  Identities=23%  Similarity=0.330  Sum_probs=157.4

Q ss_pred             hhcCCeEEEEccCCCCccCCCc--CCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEec-Ccccccc-cccccCCCC
Q 038494          516 IIQKGAIAISIPYGDIQELPER--LECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLS-GIHFSSL-SSSLGHLIN  591 (1209)
Q Consensus       516 ~~~~~~r~l~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~-~~~i~~l-p~~i~~l~~  591 (1209)
                      .++..++.+.+++|.+..++..  ..+++|++|+++++  .+..++...+..+..++.++.. .+.++.+ |..+.++++
T Consensus        29 ~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n--~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~  106 (284)
T d1ozna_          29 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN--VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (284)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS--CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCCCEEECcCCcCCCCCHHHhhccccccccccccc--cccccccccccccccccccccccccccccccchhhccccc
Confidence            4667889999999999988864  37899999999887  5677777778888999998875 4456666 557899999


Q ss_pred             CcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEeccCCCCCcccCchhhcCCCCCcEEECC
Q 038494          592 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDLSNCSSLVVIAPNVISKFSRLEELYMG  668 (1209)
Q Consensus       592 L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l~~~~~l~~~~~~~l~~L~~L~~L~l~  668 (1209)
                      |++|++++|.+..+  ..+....+|+.+++++|.++.+|. .+..+++|++|++++ +.++.+++..+.++++|+.+.+.
T Consensus       107 L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~-N~l~~l~~~~f~~l~~L~~l~l~  185 (284)
T d1ozna_         107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLH  185 (284)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhccccc-Ccccccchhhhccccccchhhhh
Confidence            99999999998776  667889999999999999998865 477889999999999 57888888888999999999998


Q ss_pred             CCCCccccccCCCccchhhhCCCCCCCEEEeeccCCCCCCccc--ccCCCCeEEE
Q 038494          669 DSFPQWDKVEGGSNASLAELKGLSKLTTLEIQVQDAQMLPQDL--VFVELPRYRI  721 (1209)
Q Consensus       669 ~~~~~~~~~~~~~~~~l~~L~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l  721 (1209)
                      ++...        ......+..+++|+.|+++.+.+..++...  ...+|+.+.+
T Consensus       186 ~N~l~--------~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         186 QNRVA--------HVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             SSCCC--------EECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             hcccc--------ccChhHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            76431        111345778889999999999988777652  5566666655

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=2.1e-11  Score=131.12  Aligned_cols=102  Identities=21%  Similarity=0.216  Sum_probs=62.2

Q ss_pred             CcEEEecCcccccccccccCCCCCcEEeccCcccCC--c-ccccCCCCCCEEEccCCCCC-ccchhccCCCCCCEEeccC
Q 038494          569 LKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLED--V-AAIGQLKKLEILSFRYSDIK-QLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       569 Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~--l-~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~~L~l~~  644 (1209)
                      +..+.++...+...........+|++|++++|.+..  + ..+..+++|++|++++|.+. ..+..+.++++|++|++++
T Consensus        25 ~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~  104 (284)
T d2astb2          25 VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSG  104 (284)
T ss_dssp             CSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTT
T ss_pred             ceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccc
Confidence            445555555544333334455677777777776543  2 34566777777777777665 4455667777788888777


Q ss_pred             CCCCcccCc-hhhcCCCCCcEEECCCC
Q 038494          645 CSSLVVIAP-NVISKFSRLEELYMGDS  670 (1209)
Q Consensus       645 ~~~l~~~~~-~~l~~L~~L~~L~l~~~  670 (1209)
                      |..++...- .....+++|++|++++|
T Consensus       105 c~~itd~~l~~l~~~~~~L~~L~ls~c  131 (284)
T d2astb2         105 CSGFSEFALQTLLSSCSRLDELNLSWC  131 (284)
T ss_dssp             CBSCCHHHHHHHHHHCTTCCEEECCCC
T ss_pred             cccccccccchhhHHHHhccccccccc
Confidence            766654221 11345677777777654

>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=99.21  E-value=2.5e-11  Score=111.42  Aligned_cols=82  Identities=24%  Similarity=0.259  Sum_probs=47.3

Q ss_pred             hcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEE
Q 038494          563 FEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLL  640 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L  640 (1209)
                      +..+++|++|++++|.++.+|+.++.+++|++|++++|.++.+++++++++|++|++++|.+..+|  ..+.++++|++|
T Consensus        16 l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L   95 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLL   95 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEE
T ss_pred             cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCCCccCCCCCchhhcCCCCCCEE
Confidence            345555666666666666665555566666666666666555555555666666666665555444  234555555555


Q ss_pred             eccC
Q 038494          641 DLSN  644 (1209)
Q Consensus       641 ~l~~  644 (1209)
                      ++++
T Consensus        96 ~l~~   99 (124)
T d1dcea3          96 NLQG   99 (124)
T ss_dssp             ECTT
T ss_pred             ECCC
Confidence            5555

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=3.6e-12  Score=137.22  Aligned_cols=92  Identities=17%  Similarity=0.155  Sum_probs=50.3

Q ss_pred             CccCCcEEEEecccCceeeeccCCccccccCCcccEEecccccccchhcccccccccccCCccEEEEecCCCccccccHH
Q 038494          787 GFPRLKHLWVERCSEILHIVGSVGRVHRKVFPLLESLSLYKLINLEAICHSQLREDQFFSNLKIIEVESCDKLKHLFSFS  866 (1209)
Q Consensus       787 ~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~  866 (1209)
                      ...+|++|++++|.....    ........+++|++|.+.+|. +.+.....+   +.+++|++|++++|..++......
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 SPFRVQHMDLSNSVIEVS----TLHGILSQCSKLQNLSLEGLR-LSDPIVNTL---AKNSNLVRLNLSGCSGFSEFALQT  115 (284)
T ss_dssp             CCBCCCEEECTTCEECHH----HHHHHHTTBCCCSEEECTTCB-CCHHHHHHH---TTCTTCSEEECTTCBSCCHHHHHH
T ss_pred             cCCCCCEEECCCCccCHH----HHHHHHHhCCCcccccccccC-CCcHHHHHH---hcCCCCcCccccccccccccccch
Confidence            345777887777642110    000013346777777777763 333222222   336777777777777666543333


Q ss_pred             HHhhcccccEEEEecccccc
Q 038494          867 IARNLLRLQKVKVASCNKLE  886 (1209)
Q Consensus       867 ~~~~l~~L~~L~l~~c~~l~  886 (1209)
                      .++++++|++|++++|..+.
T Consensus       116 l~~~~~~L~~L~ls~c~~~~  135 (284)
T d2astb2         116 LLSSCSRLDELNLSWCFDFT  135 (284)
T ss_dssp             HHHHCTTCCEEECCCCTTCC
T ss_pred             hhHHHHhccccccccccccc
Confidence            34556777777777665543

>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=99.18  E-value=2.2e-11  Score=117.90  Aligned_cols=108  Identities=17%  Similarity=0.213  Sum_probs=72.3

Q ss_pred             hcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCcccccCCCCCCEEEccCCCCCccchhc-cCCCCCCEEe
Q 038494          563 FEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRYSDIKQLPLEI-GQLAQLQLLD  641 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp~~i-~~L~~L~~L~  641 (1209)
                      |.+...+|.|+|++|.|+.+|..+..+.+|++|++++|.++.++.+..+++|++|++++|.++.+|+.+ ..+++|++|+
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~   93 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             ccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCCccccccccccccce
Confidence            345666777777777777776655667777777777777776666777777777777777777766543 4577777777


Q ss_pred             ccCCCCCcccCc-hhhcCCCCCcEEECCCCC
Q 038494          642 LSNCSSLVVIAP-NVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       642 l~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~  671 (1209)
                      +++ +.++.++. ..+..+++|++|++.+|.
T Consensus        94 L~~-N~i~~~~~l~~l~~l~~L~~L~l~~N~  123 (162)
T d1a9na_          94 LTN-NSLVELGDLDPLASLKSLTYLCILRNP  123 (162)
T ss_dssp             CCS-CCCCCGGGGGGGGGCTTCCEEECCSSG
T ss_pred             ecc-ccccccccccccccccccchhhcCCCc
Confidence            777 44544432 235667777777776653

>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=99.17  E-value=7.3e-11  Score=108.25  Aligned_cols=99  Identities=25%  Similarity=0.320  Sum_probs=87.0

Q ss_pred             cEEEecCcccccccccccCCCCCcEEeccCcccCCc-ccccCCCCCCEEEccCCCCCccchhccCCCCCCEEeccCCCCC
Q 038494          570 KVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDLSNCSSL  648 (1209)
Q Consensus       570 r~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l~~~~~l  648 (1209)
                      |+|+|++|.++.+|. +..+.+|++|++++|.++.+ ..++.+++|++|++++|.++.+| ++.++++|++|++++ +.+
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~-N~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN-NRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS-SCC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCC-Ccc
Confidence            789999999998875 89999999999999999998 67999999999999999999987 589999999999999 667


Q ss_pred             cccCc-hhhcCCCCCcEEECCCCC
Q 038494          649 VVIAP-NVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       649 ~~~~~-~~l~~L~~L~~L~l~~~~  671 (1209)
                      +.++. ..++.+++|++|+++++.
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             CCCCCchhhcCCCCCCEEECCCCc
Confidence            76653 447889999999998864

>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=99.12  E-value=4.1e-11  Score=115.94  Aligned_cols=129  Identities=16%  Similarity=0.109  Sum_probs=91.2

Q ss_pred             CCCcCCCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCc-cc-ccCC
Q 038494          534 LPERLECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV-AA-IGQL  611 (1209)
Q Consensus       534 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l-~~-i~~L  611 (1209)
                      .+....+.++|+|++++|  .+..++ ..+..+++|++|+|++|.++.++ .+..+++|++|++++|.++.+ .. +..+
T Consensus        11 ~~~~~n~~~lr~L~L~~n--~I~~i~-~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l   86 (162)
T d1a9na_          11 AAQYTNAVRDRELDLRGY--KIPVIE-NLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQAL   86 (162)
T ss_dssp             SCEEECTTSCEEEECTTS--CCCSCC-CGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHC
T ss_pred             hHhccCcCcCcEEECCCC--CCCccC-ccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCccccccc
Confidence            333445667777777777  355554 34567788888888888888775 477888888888888888777 33 4678


Q ss_pred             CCCCEEEccCCCCCccch--hccCCCCCCEEeccCCCCCcccC---chhhcCCCCCcEEEC
Q 038494          612 KKLEILSFRYSDIKQLPL--EIGQLAQLQLLDLSNCSSLVVIA---PNVISKFSRLEELYM  667 (1209)
Q Consensus       612 ~~L~~L~l~~~~~~~lp~--~i~~L~~L~~L~l~~~~~l~~~~---~~~l~~L~~L~~L~l  667 (1209)
                      ++|++|++++|.++.++.  .+..+++|++|++++| .+...+   ...+..+++|+.|+.
T Consensus        87 ~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N-~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          87 PDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             TTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cccccceeccccccccccccccccccccchhhcCCC-ccccccchHHHHHHHCCCcCeeCC
Confidence            888888888888877653  5677888888888883 454444   224667788887764

>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=99.06  E-value=5e-10  Score=117.46  Aligned_cols=99  Identities=17%  Similarity=0.298  Sum_probs=66.6

Q ss_pred             cEEEecCcccccccccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCc-cc-hhccCCCCCCEEeccCC
Q 038494          570 KVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQ-LP-LEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       570 r~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~-lp-~~i~~L~~L~~L~l~~~  645 (1209)
                      ++++.++..++.+|..+.  .++++|++++|.++.+  ..|.++++|++|++++|.+.. +| ..+.++++++++.+..+
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            566777777777776543  4677777777777666  346777777777777776553 32 34667777777777666


Q ss_pred             CCCcccCchhhcCCCCCcEEECCCC
Q 038494          646 SSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       646 ~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +.+...++..+.++++|+++++.++
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~  113 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNT  113 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESC
T ss_pred             ccccccccccccccccccccccchh
Confidence            6666666666667777777776654

>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=99.01  E-value=2.8e-10  Score=122.68  Aligned_cols=200  Identities=16%  Similarity=0.195  Sum_probs=113.2

Q ss_pred             ccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-----CcCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-----NPDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-----~~~~~~l~~~  230 (1209)
                      ...+.|+||++++++|.+.    ..++|.|+|++|+|||+|+++++++...     ...|+.+..     ......+...
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~-----~~~~i~~~~~~~~~~~~~~~~~~~   79 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLE   79 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCC-----CeEEEEeccccccccccHHHHHHH
Confidence            3467999999999998764    3578999999999999999999887643     234565432     2233444444


Q ss_pred             HHHHhC--------------CCC-----------CCCCChHHHHHHHHHHHh--cCCeEEEEEeCCCcccCccc--cCCC
Q 038494          231 LASDLD--------------LNF-----------DLNDSKPHRAKQLCQRLT--KEKRVLIILDNIWKKLGLEE--IGIP  281 (1209)
Q Consensus       231 i~~~l~--------------~~~-----------~~~~~~~~~~~~l~~~l~--~~k~~LlvlDdv~~~~~~~~--l~~~  281 (1209)
                      +.....              ...           ............+.+.+.  .+++.++|+|++........  +...
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          80 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHH
Confidence            333221              000           000000011122233332  36889999999865422111  0000


Q ss_pred             CCCCCccccccccCCcEEEEeccchhhh----ccc-------CCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHH
Q 038494          282 FGDVDEKDRKQDLRRRTIILTSRSKHLL----TND-------MNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLA  350 (1209)
Q Consensus       282 ~~~~~~~~~~~~~~~s~ilvTtR~~~v~----~~~-------~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~  350 (1209)
                      +.     ...........+++.+.....    ...       ......+.|++++.+|+.+++.+.+....-+.+   .+
T Consensus       160 l~-----~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~---~~  231 (283)
T d2fnaa2         160 LA-----YAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK---DY  231 (283)
T ss_dssp             HH-----HHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC---CH
T ss_pred             HH-----HHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH---HH
Confidence            00     000011334455544433211    100       012367899999999999999887642111111   14


Q ss_pred             HHHHHHhCCChhHHHHHHHHHh
Q 038494          351 DEIVGKCGGLPVALSTVANALK  372 (1209)
Q Consensus       351 ~~i~~~~~glPLai~~~~~~l~  372 (1209)
                      .+|++.++|+|.++..++..+.
T Consensus       232 ~~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         232 EVVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHH
Confidence            5999999999999999987664

>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=1.1e-09  Score=109.68  Aligned_cols=103  Identities=20%  Similarity=0.278  Sum_probs=63.0

Q ss_pred             CCCcEEEecCccccc-c-cccccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEe
Q 038494          567 EDLKVLSLSGIHFSS-L-SSSLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLD  641 (1209)
Q Consensus       567 ~~Lr~L~L~~~~i~~-l-p~~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~  641 (1209)
                      +.+++|+|++|.|+. + +..|..+.+|+.|++++|.+..+  ..+..+++|++|++++|+++.+|+. +.++++|++|+
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~  108 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccc
Confidence            456666666666653 3 23456666666666666666555  4556666666666666666666443 56666666666


Q ss_pred             ccCCCCCcccCchhhcCCCCCcEEECCCC
Q 038494          642 LSNCSSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       642 l~~~~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +++ +.++.++++.+..+++|++|+++++
T Consensus       109 L~~-N~l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_         109 LYD-NQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCS-SCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             cCC-ccccccCHHHhcCCccccccccccc
Confidence            666 5566666665666666666666554

>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=98.93  E-value=2.6e-09  Score=106.95  Aligned_cols=123  Identities=18%  Similarity=0.206  Sum_probs=104.6

Q ss_pred             EEEccCCCCccCCCcCCCCCccEEEeccCCCccc-ccChhhhcCCCCCcEEEecCccccccc-ccccCCCCCcEEeccCc
Q 038494          523 AISIPYGDIQELPERLECPQLKLLLLLANGDSYL-EISHLFFEGTEDLKVLSLSGIHFSSLS-SSLGHLINLQTLCLDWC  600 (1209)
Q Consensus       523 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~~~~~~~l~~Lr~L~L~~~~i~~lp-~~i~~l~~L~~L~l~~~  600 (1209)
                      .+..+++.+..+|... .+++++|++++|.  +. .++...|.++++|+.|+|++|.+..++ ..+..+.+|++|++++|
T Consensus        12 ~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_          12 TVDCTGRGLKEIPRDI-PLHTTELLLNDNE--LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCSEEECCSCC--CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             EEEEeCCCcCccCCCC-CCCCCEEEeCCCC--CcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            5667777888888765 3789999999984  54 466777899999999999999998664 57889999999999999


Q ss_pred             ccCCc--ccccCCCCCCEEEccCCCCCccchh-ccCCCCCCEEeccCCCCCc
Q 038494          601 QLEDV--AAIGQLKKLEILSFRYSDIKQLPLE-IGQLAQLQLLDLSNCSSLV  649 (1209)
Q Consensus       601 ~l~~l--~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~~L~l~~~~~l~  649 (1209)
                      .++.+  ..|.++++|++|++++|.++.+|++ +..+++|++|++++ +.+.
T Consensus        89 ~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~-N~~~  139 (192)
T d1w8aa_          89 KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLAS-NPFN  139 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTT-CCBC
T ss_pred             cccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccc-cccc
Confidence            99988  5689999999999999999998765 78999999999998 4443

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=1.8e-08  Score=105.15  Aligned_cols=77  Identities=16%  Similarity=0.210  Sum_probs=36.6

Q ss_pred             CCcEEEecCcccccccc-cccCCCCCcEEeccCcccCCc---ccccCCCCCCEEEccC-CCCCccc-hhccCCCCCCEEe
Q 038494          568 DLKVLSLSGIHFSSLSS-SLGHLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRY-SDIKQLP-LEIGQLAQLQLLD  641 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~-~i~~l~~L~~L~l~~~~l~~l---~~i~~L~~L~~L~l~~-~~~~~lp-~~i~~L~~L~~L~  641 (1209)
                      ++++|++++|.++.+|. .|.++++|++|++++|.+...   ..+.++.++++|.+.. +.+..++ ..+.++++|++|+
T Consensus        30 ~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~  109 (242)
T d1xwdc1          30 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL  109 (242)
T ss_dssp             CCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEE
T ss_pred             CCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccc
Confidence            34555555555554443 344555555555555544322   2344555555555443 2343332 2345555555555


Q ss_pred             ccC
Q 038494          642 LSN  644 (1209)
Q Consensus       642 l~~  644 (1209)
                      +.+
T Consensus       110 l~~  112 (242)
T d1xwdc1         110 ISN  112 (242)
T ss_dssp             EES
T ss_pred             cch
Confidence            555

>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=98.82  E-value=5.9e-11  Score=119.28  Aligned_cols=104  Identities=25%  Similarity=0.355  Sum_probs=49.0

Q ss_pred             cCCCCCcEEEecCcccccccccccCCCCCcEEeccCcccCCccc-ccCCCCCCEEEccCCCCCccchhccCCCCCCEEec
Q 038494          564 EGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRYSDIKQLPLEIGQLAQLQLLDL  642 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l~~-i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~L~l  642 (1209)
                      ..+++|++|+|++|.|+.++ .+..+++|++|++++|.++.++. ...+++|++|++++|.++.++ .+.++++|++|++
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~L  122 (198)
T d1m9la_          45 STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEE
T ss_pred             hcccccceeECcccCCCCcc-cccCCccccChhhcccccccccccccccccccccccccccccccc-ccccccccccccc
Confidence            44555555555555555443 24555555555555555544422 223334555555555554442 2444555555555


Q ss_pred             cCCCCCcccCc-hhhcCCCCCcEEECCCC
Q 038494          643 SNCSSLVVIAP-NVISKFSRLEELYMGDS  670 (1209)
Q Consensus       643 ~~~~~l~~~~~-~~l~~L~~L~~L~l~~~  670 (1209)
                      ++ +.++.++. ..+..+++|+.|++++|
T Consensus       123 ~~-N~i~~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         123 SN-NKITNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             SE-EECCCHHHHHHHTTTTTCSEEEECSS
T ss_pred             cc-chhccccccccccCCCccceeecCCC
Confidence            54 33333321 22445555555555443

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.79  E-value=1e-10  Score=117.43  Aligned_cols=142  Identities=22%  Similarity=0.264  Sum_probs=108.1

Q ss_pred             CeEEEEccCC--CCccCCCcC-CCCCccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccccccccccCCCCCcEEe
Q 038494          520 GAIAISIPYG--DIQELPERL-ECPQLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFSSLSSSLGHLINLQTLC  596 (1209)
Q Consensus       520 ~~r~l~l~~~--~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~  596 (1209)
                      ....+.+.+.  .+..++... .+++|++|++++|  .+..++.  +.++++|++|++++|.++.+|..+..+.+|++|+
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n--~I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~   99 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTN--NIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEE--EESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEE
T ss_pred             ccceeeeecccCchhhhhhHHhcccccceeECccc--CCCCccc--ccCCccccChhhcccccccccccccccccccccc
Confidence            3455555543  344443333 6899999999988  4666643  6889999999999999999987777778899999


Q ss_pred             ccCcccCCcccccCCCCCCEEEccCCCCCccc--hhccCCCCCCEEeccCCCCCcccCch----------hhcCCCCCcE
Q 038494          597 LDWCQLEDVAAIGQLKKLEILSFRYSDIKQLP--LEIGQLAQLQLLDLSNCSSLVVIAPN----------VISKFSRLEE  664 (1209)
Q Consensus       597 l~~~~l~~l~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~L~l~~~~~l~~~~~~----------~l~~L~~L~~  664 (1209)
                      +++|.++.++.+..+++|++|++++|.++.++  ..+..+++|++|++++| .+...++.          .+.++++|+.
T Consensus       100 l~~N~i~~l~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N-~l~~~~~~~~~~~~~r~~vi~~lp~L~~  178 (198)
T d1m9la_         100 ISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGN-PLYNDYKENNATSEYRIEVVKRLPNLKK  178 (198)
T ss_dssp             CSEEECCCHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSS-HHHHHHCTTTTHHHHHHHHHHHCSSCCE
T ss_pred             cccccccccccccccccccccccccchhccccccccccCCCccceeecCCC-ccccCcccccchhhHHHHHHHHCCCcCE
Confidence            99999999888999999999999999998876  36889999999999984 33322111          1455677777


Q ss_pred             EE
Q 038494          665 LY  666 (1209)
Q Consensus       665 L~  666 (1209)
                      |+
T Consensus       179 LD  180 (198)
T d1m9la_         179 LD  180 (198)
T ss_dssp             ES
T ss_pred             eC
Confidence            65

>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=98.67  E-value=3.4e-08  Score=101.35  Aligned_cols=186  Identities=13%  Similarity=0.166  Sum_probs=118.6

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      |....+++|.++.++.|.+|+.++..+.+.++|++|+||||+|+.+++....+..-..++-+..++..+...+...+...
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~   90 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHF   90 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHH
Confidence            44467899999999999999998887778899999999999999999887643211234555666655554443333322


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC--ccccCCCCCCCCccccccccCCcEEEEeccchh-hhcc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG--LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLTN  311 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~--~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~~  311 (1209)
                      ........               ..+.-++|+|+++....  ...+........        ...+++++|.... +...
T Consensus        91 ~~~~~~~~---------------~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~--------~~~~~i~~~~~~~~i~~~  147 (224)
T d1sxjb2          91 AQKKLHLP---------------PGKHKIVILDEADSMTAGAQQALRRTMELYS--------NSTRFAFACNQSNKIIEP  147 (224)
T ss_dssp             HHBCCCCC---------------TTCCEEEEEESGGGSCHHHHHTTHHHHHHTT--------TTEEEEEEESCGGGSCHH
T ss_pred             HHhhccCC---------------CcceEEEEEecccccchhHHHHHhhhccccc--------cceeeeeccCchhhhhhH
Confidence            21111000               13567889999987631  122211111111        4556666665543 3222


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .......+++.+++.++-...+.+.+..+.-. -..+....|++.++|-+-.+
T Consensus       148 l~sr~~~i~~~~~~~~~i~~~l~~i~~~e~~~-i~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         148 LQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK-YTNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHhhhcccchhhhHHHHHHHHHhcccC-CCHHHHHHHHHHcCCcHHHH
Confidence            23556789999999999999998877522211 12466789999999987543

>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=98.62  E-value=4.5e-08  Score=100.81  Aligned_cols=182  Identities=12%  Similarity=0.150  Sum_probs=113.0

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      |....+++|.++.++.|.+|+..+..+.+.++|++|+||||+|+.+++..........++-...+...+...........
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDF   89 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhc
Confidence            34467899999999999999998777778899999999999999999987543222233333444443333222221111


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC--ccccCCCCCCCCccccccccCCcEEEEeccchh-hhcc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG--LEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLTN  311 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~--~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~~  311 (1209)
                      ....                ....+++-++|+|+++....  ...+...+....        ..++++++|.... +...
T Consensus        90 ~~~~----------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~--------~~~~~~~~~~~~~~i~~~  145 (227)
T d1sxjc2          90 ASTR----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYT--------KNTRFCVLANYAHKLTPA  145 (227)
T ss_dssp             HHBC----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCHH
T ss_pred             cccc----------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcc--------cceeeccccCcHHHhHHH
Confidence            1000                00123456889999987631  112211111111        5667777776543 2222


Q ss_pred             cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          312 DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       312 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      .......+++.+++.++-...+.+.+....-. -..+....|++.++|-.
T Consensus       146 i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~-i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         146 LLSQCTRFRFQPLPQEAIERRIANVLVHEKLK-LSPNAEKALIELSNGDM  194 (227)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHHTTTCC-BCHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhcccccccccccccccccccccccc-CCHHHHHHHHHHcCCcH
Confidence            23556789999999999999998877533221 22456788999998854

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=4.5e-10  Score=130.58  Aligned_cols=102  Identities=23%  Similarity=0.202  Sum_probs=61.0

Q ss_pred             CccEEEeccCCCcccccChhhhcCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCCc------cccc-
Q 038494          542 QLKLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLEDV------AAIG-  609 (1209)
Q Consensus       542 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l------~~i~-  609 (1209)
                      +|++|+++++......+ ...+..++++++|+|++|.++     .++..+..+++|++|+|++|.+...      ..+. 
T Consensus         3 ~l~~ld~~~~~i~~~~~-~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARW-AELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEESCCCCHHHH-HHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCEEEeeCCcCChHHH-HHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            46667776653222112 223456677777777777765     3445566777777777777776432      2222 


Q ss_pred             CCCCCCEEEccCCCCCc-----cchhccCCCCCCEEeccC
Q 038494          610 QLKKLEILSFRYSDIKQ-----LPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       610 ~L~~L~~L~l~~~~~~~-----lp~~i~~L~~L~~L~l~~  644 (1209)
                      ...+|++|++++|.++.     ++..+..+++|++|++++
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~  121 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSD  121 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCS
T ss_pred             CCCCCCEEECCCCCccccccccccchhhcccccccccccc
Confidence            22467777777776652     344566677777777776

>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=98.59  E-value=1.2e-06  Score=92.93  Aligned_cols=192  Identities=14%  Similarity=0.195  Sum_probs=119.0

Q ss_pred             ccchhhHHHHHHHHHHHHhC------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          158 FEAFDSRMKLFQDVVEALRN------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      +..++||+.+++.+.++|..      ...+.+.|+|++|+|||++|+.+++....... ...+|+...........+..+
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccC-CcEEEecchhhhhhhhhhhhh
Confidence            34589999999999998862      23468999999999999999999999875422 245788888888888999999


Q ss_pred             HHHhCCCCCCCC-ChHHHHHHHHHHHh-cCCeEEEEEeCCCcccC-----ccccCCCCCCCCccccccccCCcEEEEecc
Q 038494          232 ASDLDLNFDLND-SKPHRAKQLCQRLT-KEKRVLIILDNIWKKLG-----LEEIGIPFGDVDEKDRKQDLRRRTIILTSR  304 (1209)
Q Consensus       232 ~~~l~~~~~~~~-~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~-----~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR  304 (1209)
                      ....+....... ........+.+.+. ......+++|+++....     ...+........       .....+|.++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~-------~~~~~~i~~~~  166 (276)
T d1fnna2          94 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLG-------AFRIALVIVGH  166 (276)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHS-------SCCEEEEEEES
T ss_pred             HHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhcccccc-------ccceEEeecCC
Confidence            988776554332 22344444555544 34567888888876521     111111111000       02234445554


Q ss_pred             chhhhccc------CCcceEEEcCCCCHHHHHHHHHHHhCC-CCCCCcchHHHHHHHHHh
Q 038494          305 SKHLLTND------MNSQKIFLIEVLSKEEALQFFEKIVGN-SAKASAFQPLADEIVGKC  357 (1209)
Q Consensus       305 ~~~v~~~~------~~~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~~  357 (1209)
                      ........      ......+.+.+++.+|.++++.+++.. .......++..+.|++..
T Consensus       167 ~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~  226 (276)
T d1fnna2         167 NDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADIT  226 (276)
T ss_dssp             STHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHH
T ss_pred             chhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHh
Confidence            43222110      012356889999999999999887641 111112244555666543

>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=98.52  E-value=6.6e-07  Score=91.77  Aligned_cols=156  Identities=17%  Similarity=0.196  Sum_probs=102.1

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCC-EEEEEEcCCCcCHHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFD-KVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~-~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..++||++++++++..|......-+.++|.+|+|||+++..++++....+    ..+ .+++++++.-            
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l------------   85 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------------   85 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH------------
Confidence            35789999999999999876667778999999999999999998875432    122 3344443221            


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc----------CccccCCCCCCCCccccccccCCcEEEEec
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL----------GLEEIGIPFGDVDEKDRKQDLRRRTIILTS  303 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~----------~~~~l~~~~~~~~~~~~~~~~~~s~ilvTt  303 (1209)
                       +.+... ...-++....+.+.+......++++||+...-          +...+..++-.         ...-++|.||
T Consensus        86 -iag~~~-~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~---------rg~i~vIgat  154 (268)
T d1r6bx2          86 -LAGTKY-RGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS---------SGKIRVIGST  154 (268)
T ss_dssp             --CCCCC-SSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS---------SCCCEEEEEE
T ss_pred             -hccCcc-chhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh---------CCCCeEEEeC
Confidence             011111 12225666677777766677999999987651          11122222211         1457888888


Q ss_pred             cchhhhcc------cCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          304 RSKHLLTN------DMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       304 R~~~v~~~------~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                      ...+....      .......+.+++.+.+++..++....
T Consensus       155 T~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         155 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            87654321      12345789999999999999987654

>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=98.50  E-value=1.1e-07  Score=97.96  Aligned_cols=182  Identities=13%  Similarity=0.151  Sum_probs=110.4

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCC-EEEEEEcCCCcCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-KVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      |....+++|.++.++.+..|+..+..+.+.++|++|+||||+|+.+++..... .+. ..+-++.+...+...+...+..
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~-~~~~~~~e~n~s~~~~~~~~~~~~~~   98 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINVIREKVKE   98 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHTTHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhc-ccCCCeeEEecCcccchhHHHHHHHH
Confidence            33467899999999999999998888888999999999999999999876532 121 2233444432222111111111


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccch-hhhc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLLT  310 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~~  310 (1209)
                      .....                .....++.++++||++...  .+..+...+....        ....+|.||... .+..
T Consensus        99 ~~~~~----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~--------~~~~~i~~~n~~~~i~~  154 (231)
T d1iqpa2          99 FARTK----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFS--------SNVRFILSCNYSSKIIE  154 (231)
T ss_dssp             HHHSC----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCH
T ss_pred             HHhhh----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCC--------cceEEEeccCChhhchH
Confidence            11000                0012467889999997652  2222221111111        344555555443 3322


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                      ........+.+.+.+.++....+.+.+....- .-..+....|++.++|-.-
T Consensus       155 ~l~sR~~~i~~~~~~~~~~~~~l~~~~~~e~i-~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         155 PIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL-ELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             HHHHTEEEEECCCCCHHHHHHHHHHHHHTTTC-EECHHHHHHHHHHHTTCHH
T ss_pred             hHhCccccccccccchhhHHHHHHHHHHHhCC-CCCHHHHHHHHHHcCCCHH
Confidence            22234578999999999999999888753222 1224567899999988654

>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=98.49  E-value=6.1e-08  Score=100.62  Aligned_cols=192  Identities=11%  Similarity=0.137  Sum_probs=114.9

Q ss_pred             cccccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc-cCCEEEEEEcCCCcCHHHHHHHHHH
Q 038494          155 AKDFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-VFDKVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       155 ~~~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-~f~~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      |....+++|+++.++.+..|+.....+.+.++|++|+||||+|+.++++..... .......+..+...........+-.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            334667899999999999999877777788999999999999999998864321 1233445556655555444333322


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hhc
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LLT  310 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~~  310 (1209)
                      ...........      .........+.-++|+|+++...  .+..+........        ...++++|+.... +..
T Consensus        88 ~~~~~~~~~~~------~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~--------~~~~~i~~~~~~~~~~~  153 (237)
T d1sxjd2          88 FARLTVSKPSK------HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS--------GVTRFCLICNYVTRIID  153 (237)
T ss_dssp             HHHSCCCCCCT------THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT--------TTEEEEEEESCGGGSCH
T ss_pred             HhhhhhhhhhH------HHHhhccccCceEEEEecccccCHHHHHHHhhcccccc--------ccccccccccccccccc
Confidence            22111111111      01111222344579999998662  2222211111111        4556666665432 222


Q ss_pred             ccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          311 NDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       311 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ........+++.+++.++...++.+.+....- .-..+..+.|++.++|-.
T Consensus       154 ~l~sr~~~i~f~~~~~~~~~~~L~~i~~~e~i-~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         154 PLASQCSKFRFKALDASNAIDRLRFISEQENV-KCDDGVLERILDISAGDL  203 (237)
T ss_dssp             HHHHHSEEEECCCCCHHHHHHHHHHHHHTTTC-CCCHHHHHHHHHHTSSCH
T ss_pred             cccchhhhhccccccccccchhhhhhhhhhcC-cCCHHHHHHHHHHcCCCH
Confidence            12234468999999999999999887753222 123467789999997754

>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=98.46  E-value=3.2e-07  Score=87.31  Aligned_cols=99  Identities=19%  Similarity=0.149  Sum_probs=54.0

Q ss_pred             cEEEecCcccccccccccCCCCCcEEeccCcc-cCCc--ccccCCCCCCEEEccCCCCCccc-hhccCCCCCCEEeccCC
Q 038494          570 KVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQ-LEDV--AAIGQLKKLEILSFRYSDIKQLP-LEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       570 r~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~-l~~l--~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~L~l~~~  645 (1209)
                      ..++++++.+.+.|..+..+++|+.|++.++. ++.+  ..|.++++|+.|++++|+++.++ ..+..+++|++|++++ 
T Consensus        11 ~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~-   89 (156)
T d2ifga3          11 SGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF-   89 (156)
T ss_dssp             SCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS-
T ss_pred             CeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccC-
Confidence            34555555555555555555666666665443 5555  34555666666666666666553 3355566666666665 


Q ss_pred             CCCcccCchhhcCCCCCcEEECCCC
Q 038494          646 SSLVVIAPNVISKFSRLEELYMGDS  670 (1209)
Q Consensus       646 ~~l~~~~~~~l~~L~~L~~L~l~~~  670 (1209)
                      +.++.++++.+.. .+|++|+++++
T Consensus        90 N~l~~l~~~~~~~-~~l~~L~L~~N  113 (156)
T d2ifga3          90 NALESLSWKTVQG-LSLQELVLSGN  113 (156)
T ss_dssp             SCCSCCCSTTTCS-CCCCEEECCSS
T ss_pred             CCCcccChhhhcc-ccccccccCCC
Confidence            4555555543332 24555555544

>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=98.45  E-value=9.9e-07  Score=90.89  Aligned_cols=184  Identities=13%  Similarity=0.193  Sum_probs=113.0

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCC-------------------EEEEE
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFD-------------------KVVMA  216 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~-------------------~~~wv  216 (1209)
                      ...+++|.++.++.+..++..+.. ..+.|+|++|+||||+|+.+++.........                   .++++
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   89 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEI   89 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEE
T ss_pred             CHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEe
Confidence            366899999999999999987654 4578999999999999999988764321111                   12333


Q ss_pred             EcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCcccccccc
Q 038494          217 EVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDL  294 (1209)
Q Consensus       217 ~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~  294 (1209)
                      +.+.......+ +.+.+.+....                 ..+++.++|+|+++...  ....+...+-...        
T Consensus        90 ~~~~~~~i~~i-r~~~~~~~~~~-----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~--------  143 (239)
T d1njfa_          90 DAASRTKVEDT-RDLLDNVQYAP-----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPP--------  143 (239)
T ss_dssp             ETTCSSSHHHH-HHHHHSCCCSC-----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCC--------
T ss_pred             cchhcCCHHHH-HHHHHHHHhcc-----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCC--------
Confidence            33333222221 22222221110                 02455689999998763  1122222111111        


Q ss_pred             CCcEEEEeccchh-hhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh-HHHHH
Q 038494          295 RRRTIILTSRSKH-LLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV-ALSTV  367 (1209)
Q Consensus       295 ~~s~ilvTtR~~~-v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL-ai~~~  367 (1209)
                      .++++|++|.+.. +..........+.+.+++.++-.+.+.+.+..... .-.++.+..|++.++|.+- |+..+
T Consensus       144 ~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~-~~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         144 EHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-AHEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             TTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCeEEEEEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhcc-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5667777776543 22222345678999999999999988887652222 2234677899999999885 45443

>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=98.43  E-value=5e-07  Score=85.88  Aligned_cols=98  Identities=27%  Similarity=0.264  Sum_probs=66.5

Q ss_pred             cEEEeccCCCcccccChhhhcCCCCCcEEEecCc-ccccccc-cccCCCCCcEEeccCcccCCc--ccccCCCCCCEEEc
Q 038494          544 KLLLLLANGDSYLEISHLFFEGTEDLKVLSLSGI-HFSSLSS-SLGHLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  619 (1209)
Q Consensus       544 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~-~i~~lp~-~i~~l~~L~~L~l~~~~l~~l--~~i~~L~~L~~L~l  619 (1209)
                      .++++.++.  ....+.. +..+++|+.|+++++ .++.++. .|..+.+|+.|++++|.++.+  ..|..+++|++|++
T Consensus        11 ~~l~c~~~~--~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L   87 (156)
T d2ifga3          11 SGLRCTRDG--ALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             SCEECCSSC--CCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             CeEEecCCC--CccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            344444432  3333333 356777777777655 4776653 577778888888888887777  45777888888888


Q ss_pred             cCCCCCccchhccCCCCCCEEeccC
Q 038494          620 RYSDIKQLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       620 ~~~~~~~lp~~i~~L~~L~~L~l~~  644 (1209)
                      ++|.++.+|.++-...+|++|++++
T Consensus        88 s~N~l~~l~~~~~~~~~l~~L~L~~  112 (156)
T d2ifga3          88 SFNALESLSWKTVQGLSLQELVLSG  112 (156)
T ss_dssp             CSSCCSCCCSTTTCSCCCCEEECCS
T ss_pred             cCCCCcccChhhhccccccccccCC
Confidence            8888888877665555788888877

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=1.4e-08  Score=117.46  Aligned_cols=103  Identities=23%  Similarity=0.360  Sum_probs=70.9

Q ss_pred             CCcEEEecCccccc--ccccccCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCCc-----cchhcc-C
Q 038494          568 DLKVLSLSGIHFSS--LSSSLGHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIKQ-----LPLEIG-Q  633 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~--lp~~i~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~~-----lp~~i~-~  633 (1209)
                      .|++||++++++++  +..-+..+++|++|+|++|.++..      ..+..+++|++||+++|.++.     +...+. .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcC
Confidence            57899999999874  345567788999999999987642      446778889999999887752     222222 2


Q ss_pred             CCCCCEEeccCCCCCcccC----chhhcCCCCCcEEECCCCC
Q 038494          634 LAQLQLLDLSNCSSLVVIA----PNVISKFSRLEELYMGDSF  671 (1209)
Q Consensus       634 L~~L~~L~l~~~~~l~~~~----~~~l~~L~~L~~L~l~~~~  671 (1209)
                      ..+|++|++++| .++...    ...+..+++|++|+++++.
T Consensus        83 ~~~L~~L~L~~n-~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          83 SCKIQKLSLQNC-CLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             TCCCCEEECTTS-CCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CCCCCEEECCCC-Cccccccccccchhhcccccccccccccc
Confidence            346888888885 354322    1235567777787777653

>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=98.36  E-value=3.9e-07  Score=95.31  Aligned_cols=192  Identities=10%  Similarity=0.088  Sum_probs=101.2

Q ss_pred             cccchhhHHHHHHHHHHHHhCC-CceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCEEEEEEcCCC----------
Q 038494          157 DFEAFDSRMKLFQDVVEALRND-KLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDKVVMAEVTEN----------  221 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~-~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~s~~----------  221 (1209)
                      ...+++|+++..+.|..++... ..+-+.|+|++|+||||+|+.+++......    .++...|...+..          
T Consensus         9 ~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSP   88 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECS
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCC
Confidence            3668999999888888887643 345577999999999999999998753211    1112222111100          


Q ss_pred             -----------cCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCcc
Q 038494          222 -----------PDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEK  288 (1209)
Q Consensus       222 -----------~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~  288 (1209)
                                 ...........+..........      ..-.... .++.-++|+|+++...  .+..+...+....  
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~-~~~~~iiiide~d~l~~~~~~~l~~~~e~~~--  159 (252)
T d1sxje2          89 YHLEITPSDMGNNDRIVIQELLKEVAQMEQVDF------QDSKDGL-AHRYKCVIINEANSLTKDAQAALRRTMEKYS--  159 (252)
T ss_dssp             SEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST--
T ss_pred             ccceeeecccccCCcceeeehhhhhhhhhhhhh------hhccccc-CCCceEEEeccccccccccchhhhccccccc--
Confidence                       0011111111111111100000      0000011 1345689999998752  2222211111111  


Q ss_pred             ccccccCCcEEEEeccchhhh-cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          289 DRKQDLRRRTIILTSRSKHLL-TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       289 ~~~~~~~~s~ilvTtR~~~v~-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                            ..+++|+||.+.... .........+++.+++.++..+++...+.........++....|++.+.|.+-.
T Consensus       160 ------~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 ------KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             ------TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHH
T ss_pred             ------ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHH
Confidence                  566777777654321 111233468899999999999999877642222222246678899999887653

>d1jbka_ c.37.1.20 (A:) ClpB, 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: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.31  E-value=1.7e-06  Score=83.23  Aligned_cols=157  Identities=15%  Similarity=0.194  Sum_probs=92.6

Q ss_pred             chhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCCE-EEEEEcCCCcCHHHHHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFDK-VVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~-~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      ..+||+++++++...|......-+.++|.+|+|||+++..++++....+    .-+. ++.++++      .+    +. 
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~------~L----iA-   91 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------AL----VA-   91 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------HH----HT-
T ss_pred             CCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH------HH----hc-
Confidence            4679999999999999976667788999999999999999998876432    1233 3434321      11    11 


Q ss_pred             hCCCCCCCCChHHHHHHHHHHHh-cCCeEEEEEeCCCcccCccccCCCCCCCCcccc---ccccCCcEEEEeccchhhhc
Q 038494          235 LDLNFDLNDSKPHRAKQLCQRLT-KEKRVLIILDNIWKKLGLEEIGIPFGDVDEKDR---KQDLRRRTIILTSRSKHLLT  310 (1209)
Q Consensus       235 l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~---~~~~~~s~ilvTtR~~~v~~  310 (1209)
                        ....... -++....+.+.+. ...+.++++||+...-.-..   ..........   ......-++|.||.......
T Consensus        92 --g~~~rG~-~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~---~~g~~d~~~~Lkp~L~rg~l~~IgatT~eey~~  165 (195)
T d1jbka_          92 --GAKYRGE-FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGK---ADGAMDAGNMLKPALARGELHCVGATTLDEYRQ  165 (195)
T ss_dssp             --TTCSHHH-HHHHHHHHHHHHHHSTTTEEEEEETGGGGTT---------CCCCHHHHHHHHHTTSCCEEEEECHHHHHH
T ss_pred             --cCCccHH-HHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCC---CCCcccHHHHHHHHHhCCCceEEecCCHHHHHH
Confidence              0000000 1444555666653 23479999999976521100   0000000000   01124567888887654322


Q ss_pred             c------cCCcceEEEcCCCCHHHHHHHH
Q 038494          311 N------DMNSQKIFLIEVLSKEEALQFF  333 (1209)
Q Consensus       311 ~------~~~~~~~~~l~~L~~~e~~~lf  333 (1209)
                      .      .......+.+...+.+++..++
T Consensus       166 ~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         166 YIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            1      1245578999999999887653

>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=98.26  E-value=1.6e-05  Score=84.37  Aligned_cols=191  Identities=17%  Similarity=0.133  Sum_probs=114.2

Q ss_pred             ccchhhHHHHHHHHHHHHh----CC--C---ceEEEEEcCCCChHHHHHHHHHHHHhhc----ccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR----ND--K---LNIIGVHGMGGVGKTTLVKQIAKQVMED----KVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~~--~---~~vi~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~s~~~~~  224 (1209)
                      +..+.||+.++++|.+++.    ++  .   ..++.|+|++|+|||++++.+++.....    .......++.+......
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            4568899999999988764    11  1   1245678999999999999999886431    11235678888888888


Q ss_pred             HHHHHHHHHHhCCCCCCCCC-hHHHHHHHHHHHh-cCCeEEEEEeCCCcccCcc-----------cc---CCCCCCCCcc
Q 038494          225 QKIQDKLASDLDLNFDLNDS-KPHRAKQLCQRLT-KEKRVLIILDNIWKKLGLE-----------EI---GIPFGDVDEK  288 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~-~~~~~~~l~~~l~-~~k~~LlvlDdv~~~~~~~-----------~l---~~~~~~~~~~  288 (1209)
                      ......+...++........ .......+..... .+...++++|.++....-.           .+   .......   
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~---  171 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV---  171 (287)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC---
T ss_pred             hhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcc---
Confidence            88888888888765544322 2333334444333 3567888889887542110           01   1111111   


Q ss_pred             ccccccCCcE-EEEeccchhhh-------cccCCcceEEEcCCCCHHHHHHHHHHHhCCC-CCCCcchHHHHHHHHHh
Q 038494          289 DRKQDLRRRT-IILTSRSKHLL-------TNDMNSQKIFLIEVLSKEEALQFFEKIVGNS-AKASAFQPLADEIVGKC  357 (1209)
Q Consensus       289 ~~~~~~~~s~-ilvTtR~~~v~-------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~i~~~~  357 (1209)
                            .... |++++......       .........+.+++++.+|..+++..++... ....-.++..+.|+++.
T Consensus       172 ------~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         172 ------NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             ------CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             ------cceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHH
Confidence                  2223 33343332111       1011234688999999999999999876311 11112245666777765

>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=98.23  E-value=2.4e-06  Score=89.17  Aligned_cols=189  Identities=11%  Similarity=0.030  Sum_probs=108.7

Q ss_pred             ccchhhHHHHHHHHHHHHhC-----------------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          158 FEAFDSRMKLFQDVVEALRN-----------------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ..+++|.+..+++|.+|+..                 ...+.+.++|++|+||||+|+.+++....     .++++..+.
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~-----~~~~~~~~~   87 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQNASD   87 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEECTTS
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-----hhhcccccc
Confidence            66889999999999998852                 23467999999999999999999987643     356777776


Q ss_pred             CcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCc-----cccCCCCCCCCccccccccC
Q 038494          221 NPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGL-----EEIGIPFGDVDEKDRKQDLR  295 (1209)
Q Consensus       221 ~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~-----~~l~~~~~~~~~~~~~~~~~  295 (1209)
                      ..+...+... .+..............   ........++..++++|+++.....     ..+....          ...
T Consensus        88 ~~~~~~~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~----------~~~  153 (253)
T d1sxja2          88 VRSKTLLNAG-VKNALDNMSVVGYFKH---NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC----------RKT  153 (253)
T ss_dssp             CCCHHHHHHT-GGGGTTBCCSTTTTTC-------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHH----------HHC
T ss_pred             chhhHHHHHH-HHHHhhcchhhhhhhh---hhhcccccccceEEEeeeccccccchhhhhHHHhhhh----------ccc
Confidence            6555444332 2222111111000000   0000011356789999998765221     1111000          002


Q ss_pred             CcEEEEecc--chhhhcccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh-hHHHH
Q 038494          296 RRTIILTSR--SKHLLTNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP-VALST  366 (1209)
Q Consensus       296 ~s~ilvTtR--~~~v~~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP-Lai~~  366 (1209)
                      ...+++|+.  ..............+++.+.+.++-...+...+....-. -..+...+|++.++|-. -||..
T Consensus       154 ~~~ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~-i~~~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         154 STPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK-LDPNVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             SSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-CCTTHHHHHHHHTTTCHHHHHHH
T ss_pred             ccccccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCC-CCHHHHHHHHHhCCCcHHHHHHH
Confidence            223444433  222222223456789999999999999888876421111 11245679999999966 44433

>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=98.16  E-value=7.9e-06  Score=81.47  Aligned_cols=179  Identities=9%  Similarity=0.115  Sum_probs=104.8

Q ss_pred             HHHHHHHHHHHhCCCc-eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCC-----
Q 038494          165 MKLFQDVVEALRNDKL-NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLN-----  238 (1209)
Q Consensus       165 ~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~-----  238 (1209)
                      +...+++.+.+..++. ..+.++|+.|+||||+|+.+++..-......   +-.+....+.    ..+.......     
T Consensus         8 ~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~----~~i~~~~~~~~~~~~   80 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGC----QLMQAGTHPDYYTLA   80 (207)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHH----HHHHHTCCTTEEEEC
T ss_pred             HHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccchh----hhhhhccccccchhh
Confidence            4457788888876664 4689999999999999999998763211000   0000001011    1111111100     


Q ss_pred             --CCCCCChHHHHHHHHHHHh----cCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccchh-hh
Q 038494          239 --FDLNDSKPHRAKQLCQRLT----KEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKH-LL  309 (1209)
Q Consensus       239 --~~~~~~~~~~~~~l~~~l~----~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~-v~  309 (1209)
                        ........+.++.+.+.+.    .+++-++|+||++...  ....+...+-...        .+.++|+||++.. +.
T Consensus        81 ~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~--------~~~~fIl~t~~~~~ll  152 (207)
T d1a5ta2          81 PEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPP--------AETWFFLATREPERLL  152 (207)
T ss_dssp             CCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCC--------TTEEEEEEESCGGGSC
T ss_pred             hhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhc--------ccceeeeeecChhhhh
Confidence              0001111344455555443    2466799999999763  2333322222212        5777787777654 33


Q ss_pred             cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHH
Q 038494          310 TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVAL  364 (1209)
Q Consensus       310 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai  364 (1209)
                      .........+.+.+++.++....+.+...      -.++.+..|++.++|.|-.+
T Consensus       153 ~tI~SRc~~i~~~~~~~~~~~~~L~~~~~------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         153 ATLRSRCRLHYLAPPPEQYAVTWLSREVT------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHCC------CCHHHHHHHHHHTTTCHHHH
T ss_pred             hhhcceeEEEecCCCCHHHHHHHHHHcCC------CCHHHHHHHHHHcCCCHHHH
Confidence            33335568999999999999999876542      12466788999999988544

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {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: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.15  E-value=6.8e-05  Score=76.83  Aligned_cols=182  Identities=20%  Similarity=0.175  Sum_probs=103.0

Q ss_pred             cccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKL  231 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i  231 (1209)
                      ..++++|-+..++.+..++.     ....+-+.++|++|+||||+|+.+++.....     ..+++.+...........+
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~-----~~~~~~~~~~~~~~~~~~~   81 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEKPGDLAAIL   81 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC-----EEEEETTTCCSHHHHHHHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----eEeccCCccccchhhHHHH
Confidence            36689999988888888875     2235677899999999999999999876532     3455555443333222222


Q ss_pred             HHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---------cc----ccCCCCCCCCccccccccCCcE
Q 038494          232 ASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---------LE----EIGIPFGDVDEKDRKQDLRRRT  298 (1209)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---------~~----~l~~~~~~~~~~~~~~~~~~s~  298 (1209)
                      .+.+                       +.+.++++|+++....         .+    .......... .......+...
T Consensus        82 ~~~~-----------------------~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~-~~~~~~~~~~~  137 (239)
T d1ixsb2          82 ANSL-----------------------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAA-RTIRLELPRFT  137 (239)
T ss_dssp             HTTC-----------------------CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCC-CEEEEECCCCE
T ss_pred             Hhhc-----------------------cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhh-hhcccCCCCEE
Confidence            1111                       1234556676654410         00    0000000000 00000112334


Q ss_pred             EEEec-cchhhh-cccCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHHHH
Q 038494          299 IILTS-RSKHLL-TNDMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALSTVA  368 (1209)
Q Consensus       299 ilvTt-R~~~v~-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~~~  368 (1209)
                      ++.+| +..... .........+.+...+.++...+....+.... .....+....|++.++|.+-.+..+.
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-i~~~~~~l~~ia~~s~gd~R~a~~~l  208 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLG-VRITEEAALEIGRRSRGTMRVAKRLF  208 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGC-CCBCHHHHHHHHHHTTSSHHHHHHHH
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhC-CccchHHHHHHHHHcCCCHHHHHHHH
Confidence            44444 332221 11224467889999999999998887765322 23346688899999999876554443

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

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: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.15  E-value=5.1e-05  Score=77.78  Aligned_cols=181  Identities=17%  Similarity=0.231  Sum_probs=102.3

Q ss_pred             ccccchhhHHHHHHHHHHHHh-----CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          156 KDFEAFDSRMKLFQDVVEALR-----NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       156 ~~~~~~~gR~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      ...++++|.+..++.|..|+.     ....+.+.++|++|+||||+|+.+++.....     .+.++.+......++.. 
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~-----~~~~~~~~~~~~~~~~~-   79 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN-----IHVTSGPVLVKQGDMAA-   79 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC-----EEEEETTTCCSHHHHHH-
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC-----cccccCcccccHHHHHH-
Confidence            346789999999999988876     2234567899999999999999999887532     23445444443333222 


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC---------ccccC--CCCCCCC-ccccccccCCcE
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG---------LEEIG--IPFGDVD-EKDRKQDLRRRT  298 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~---------~~~l~--~~~~~~~-~~~~~~~~~~s~  298 (1209)
                      ++..                       ..++..+++|+++....         .+...  ....... ............
T Consensus        80 ~~~~-----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (238)
T d1in4a2          80 ILTS-----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  136 (238)
T ss_dssp             HHHH-----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             HHHh-----------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeE
Confidence            1111                       12345566666654410         00000  0000000 000000013445


Q ss_pred             EEEeccchhhh-cc-cCCcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhHHHH
Q 038494          299 IILTSRSKHLL-TN-DMNSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVALST  366 (1209)
Q Consensus       299 ilvTtR~~~v~-~~-~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLai~~  366 (1209)
                      +|.+|...... .. .......+.++..+.++...++........ ....++....|++.++|-+-.+..
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHHH
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc-chhhHHHHHHHHHhCCCCHHHHHH
Confidence            55555554322 11 123345789999999999999988765222 223356788999999998665543

>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=98.10  E-value=2.7e-05  Score=79.42  Aligned_cols=175  Identities=13%  Similarity=0.157  Sum_probs=98.0

Q ss_pred             ccchhhHHHHHHHHHHHH---hC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEAL---RN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L---~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      ..+++|-++.+++|.+.+   ..         ...+-|.++|++|+|||++|+.+++.....     .+-++.      .
T Consensus         8 ~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~-----~~~i~~------~   76 (247)
T d1ixza_           8 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP-----FITASG------S   76 (247)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC-----EEEEEH------H
T ss_pred             HHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC-----EEEEEh------H
Confidence            557778776666555433   21         123568999999999999999999876432     233332      1


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccC----------------ccccCCCCCCCCccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLG----------------LEEIGIPFGDVDEKD  289 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~----------------~~~l~~~~~~~~~~~  289 (1209)
                      ++..    .      ........++.+.+......+.+|++||++....                ...+...+....   
T Consensus        77 ~l~~----~------~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~---  143 (247)
T d1ixza_          77 DFVE----M------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE---  143 (247)
T ss_dssp             HHHH----S------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC---
T ss_pred             Hhhh----c------cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC---
Confidence            2211    0      0001134455666666556889999999875310                000100000000   


Q ss_pred             cccccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          290 RKQDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       290 ~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                         ...+.-||-||.........+    .-...+.+++.+.++-.++|+..........+  .....+++.+.|..
T Consensus       144 ---~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~--~~~~~la~~t~g~s  214 (247)
T d1ixza_         144 ---KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFV  214 (247)
T ss_dssp             ---TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCC
T ss_pred             ---CCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccc--cCHHHHHHHCCCCC
Confidence               002222333666544332222    23468999999999999999988863322222  11357778887754

>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=98.08  E-value=9.8e-06  Score=88.07  Aligned_cols=165  Identities=13%  Similarity=0.147  Sum_probs=93.3

Q ss_pred             cchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcc----cCC-EEEEEEcCCCcCHHHHHHHHHH
Q 038494          159 EAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK----VFD-KVVMAEVTENPDVQKIQDKLAS  233 (1209)
Q Consensus       159 ~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~----~f~-~~~wv~~s~~~~~~~l~~~i~~  233 (1209)
                      ..++||+++++++++.|......-+.++|.+|+|||+++..++++....+    -.+ .+++++++.-          +.
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l----------~a   91 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL----------LA   91 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh----------hc
Confidence            35789999999999999865555667899999999999998888765432    123 3444544321          11


Q ss_pred             HhCCCCCCCCChHHHHHHHHHHHhcC-CeEEEEEeCCCcccCccccCCCCCCCCccccccccCCcEEEEeccchhhhcc-
Q 038494          234 DLDLNFDLNDSKPHRAKQLCQRLTKE-KRVLIILDNIWKKLGLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTN-  311 (1209)
Q Consensus       234 ~l~~~~~~~~~~~~~~~~l~~~l~~~-k~~LlvlDdv~~~~~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~-  311 (1209)
                      ...   ... .-++.+..+...+... .+++|++|++...-.-..-.......+..........-++|.+|........ 
T Consensus        92 g~~---~~g-~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~I~~tT~~ey~~~e  167 (387)
T d1qvra2          92 GAK---YRG-EFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREIE  167 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHHHT
T ss_pred             ccC---cch-hHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcceeeecCHHHHHHhc
Confidence            000   001 1145555666666543 4799999999765211000000000000000011245678887766543211 


Q ss_pred             ----cCCcceEEEcCCCCHHHHHHHHHHHh
Q 038494          312 ----DMNSQKIFLIEVLSKEEALQFFEKIV  337 (1209)
Q Consensus       312 ----~~~~~~~~~l~~L~~~e~~~lf~~~~  337 (1209)
                          .......+.+++.+.+++..++....
T Consensus       168 ~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         168 KDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             TCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             ccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence                12455789999999999999998664

>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=98.07  E-value=6e-05  Score=77.13  Aligned_cols=181  Identities=17%  Similarity=0.153  Sum_probs=102.1

Q ss_pred             ccchhhHHHHHHHHHHH---HhC---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHH
Q 038494          158 FEAFDSRMKLFQDVVEA---LRN---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~---L~~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~  225 (1209)
                      +.+++|-++.+++|.+.   +..         ...+.+.++|++|+|||++|+.+++.....     .+-++.++-.+  
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~-----~~~i~~~~l~~--   83 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP-----FFTISGSDFVE--   83 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC-----EEEECSCSSTT--
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC-----EEEEEhHHhhh--
Confidence            56777877777766554   321         124568899999999999999999877532     23333332111  


Q ss_pred             HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCccccCCCCCCCCcc-----ccc------ccc
Q 038494          226 KIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLEEIGIPFGDVDEK-----DRK------QDL  294 (1209)
Q Consensus       226 ~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~~l~~~~~~~~~~-----~~~------~~~  294 (1209)
                                    ......+..++.+.+...+..+++|++||++....-..-... ......     .++      ...
T Consensus        84 --------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~-~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          84 --------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLG-GGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             --------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSC-CTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             --------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCC-CCcHHHHHHHHHHHHHhhCCCCC
Confidence                          000111445666666666678899999999753100000000 000000     000      011


Q ss_pred             CCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChh
Q 038494          295 RRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPV  362 (1209)
Q Consensus       295 ~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPL  362 (1209)
                      .+--||.||..........    .-...+.++..+.++-.++|+.........++  .....+++.+.|..-
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~--~~~~~la~~t~G~s~  218 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD--IDAAIIARGTPGFSG  218 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCCH
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcc--cCHHHHHHhCCCCCH
Confidence            3344555777654332222    23478999999999999999988763322221  123577788887643

>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=97.90  E-value=3.9e-05  Score=79.25  Aligned_cols=175  Identities=10%  Similarity=0.123  Sum_probs=100.6

Q ss_pred             ccchhhHHHHHHHHHHHHh----C---------CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCH
Q 038494          158 FEAFDSRMKLFQDVVEALR----N---------DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDV  224 (1209)
Q Consensus       158 ~~~~~gR~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~  224 (1209)
                      +.++.|-++.+++|.+.+.    .         ...+-|.++|++|+|||++|+.+++.....     .+.++.+.    
T Consensus         3 ~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~~----   73 (258)
T d1e32a2           3 YDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE----   73 (258)
T ss_dssp             GGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHHH----
T ss_pred             hhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEchh----
Confidence            3456777777777766532    1         124578999999999999999999876532     23332211    


Q ss_pred             HHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcccCcc-------------ccCCCCCCCCccccc
Q 038494          225 QKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKKLGLE-------------EIGIPFGDVDEKDRK  291 (1209)
Q Consensus       225 ~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~~~~-------------~l~~~~~~~~~~~~~  291 (1209)
                                +....  .......++.+.+.....++.+|++||++....-+             .+......      .
T Consensus        74 ----------l~~~~--~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~------~  135 (258)
T d1e32a2          74 ----------IMSKL--AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDG------L  135 (258)
T ss_dssp             ----------HTTSC--TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHT------C
T ss_pred             ----------hcccc--cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhcccccc------c
Confidence                      00000  01113334444444444688999999998752100             00000000      0


Q ss_pred             cccCCcEEEEeccchhhhcccC----CcceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCCh
Q 038494          292 QDLRRRTIILTSRSKHLLTNDM----NSQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLP  361 (1209)
Q Consensus       292 ~~~~~s~ilvTtR~~~v~~~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glP  361 (1209)
                      ....+.-||.||..........    .-...+.++..+.++-.++|..........++.  ...+|++++.|.-
T Consensus       136 ~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~--~~~~la~~t~G~s  207 (258)
T d1e32a2         136 KQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHV  207 (258)
T ss_dssp             CCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTC--CHHHHHHHCTTCC
T ss_pred             cccCCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccccccc--chhhhhhcccCCC
Confidence            0113444566887664432222    245789999999999999999887533222221  1458899998864

>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=97.87  E-value=1.1e-06  Score=96.55  Aligned_cols=83  Identities=18%  Similarity=0.131  Sum_probs=49.2

Q ss_pred             hcCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCC-----------c-ccccCCCCCCEEEccCCCCC
Q 038494          563 FEGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLED-----------V-AAIGQLKKLEILSFRYSDIK  625 (1209)
Q Consensus       563 ~~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~-----------l-~~i~~L~~L~~L~l~~~~~~  625 (1209)
                      +.+...|+.|+|++|.+.     .+-..+...++|+.|+++++....           + ..+..+++|++|++++|.+.
T Consensus        27 L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~  106 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG  106 (344)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC
T ss_pred             HhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccc
Confidence            355677777777777664     234455666777777777654321           1 33445666777777766554


Q ss_pred             c-----cchhccCCCCCCEEeccCC
Q 038494          626 Q-----LPLEIGQLAQLQLLDLSNC  645 (1209)
Q Consensus       626 ~-----lp~~i~~L~~L~~L~l~~~  645 (1209)
                      .     +...+...++|++|++++|
T Consensus       107 ~~~~~~l~~~l~~~~~L~~L~l~~n  131 (344)
T d2ca6a1         107 PTAQEPLIDFLSKHTPLEHLYLHNN  131 (344)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSS
T ss_pred             cccccchhhhhcccccchheecccc
Confidence            2     3334445566677766663

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

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: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.78  E-value=0.00026  Score=71.98  Aligned_cols=73  Identities=19%  Similarity=0.157  Sum_probs=43.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      .+-|.++|++|+|||++|+.+++.....  |   +.++.+....             ..  ........++.+.+...+.
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~~~~--~---~~i~~~~~~~-------------g~--~~~~~~~~i~~if~~A~~~   99 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEESNFP--F---IKICSPDKMI-------------GF--SETAKCQAMKKIFDDAYKS   99 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHTCS--E---EEEECGGGCT-------------TC--CHHHHHHHHHHHHHHHHTS
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhccccc--c---cccccccccc-------------cc--cccchhhhhhhhhhhhhhc
Confidence            4568899999999999999999876532  2   2333322100             00  0000012233444444456


Q ss_pred             CeEEEEEeCCCcc
Q 038494          260 KRVLIILDNIWKK  272 (1209)
Q Consensus       260 k~~LlvlDdv~~~  272 (1209)
                      .+.+|++|+++..
T Consensus       100 ~p~il~iDEid~l  112 (246)
T d1d2na_         100 QLSCVVVDDIERL  112 (246)
T ss_dssp             SEEEEEECCHHHH
T ss_pred             ccceeehhhhhhH
Confidence            7899999999753

>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=97.71  E-value=0.00016  Score=71.80  Aligned_cols=161  Identities=17%  Similarity=0.184  Sum_probs=91.3

Q ss_pred             HHHHHHHhCCC--ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChH
Q 038494          169 QDVVEALRNDK--LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKP  246 (1209)
Q Consensus       169 ~~l~~~L~~~~--~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~  246 (1209)
                      ..+.++....+  ...+.|+|.+|+|||.|++++++....+  ...+++++.      .++...+...+..         
T Consensus        23 ~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~~------~~~~~~~~~~~~~---------   85 (213)
T d1l8qa2          23 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSA------DDFAQAMVEHLKK---------   85 (213)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEH------HHHHHHHHHHHHH---------
T ss_pred             HHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEech------HHHHHHHHHHHHc---------
Confidence            33444444322  2447899999999999999999998754  345666654      3344444443321         


Q ss_pred             HHHHHHHHHHhcCCeEEEEEeCCCccc---Cccc-cCCCCCCCCccccccccCCcEEEEeccchhhhccc--------CC
Q 038494          247 HRAKQLCQRLTKEKRVLIILDNIWKKL---GLEE-IGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTND--------MN  314 (1209)
Q Consensus       247 ~~~~~l~~~l~~~k~~LlvlDdv~~~~---~~~~-l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~--------~~  314 (1209)
                      .....+.+.+.  .--+|++||++...   .|+. +...+...       ...|.+||+|++.....-..        ..
T Consensus        86 ~~~~~~~~~~~--~~dll~iDDi~~i~~~~~~~~~lf~lin~~-------~~~~~~iiits~~~p~~l~~~~~dL~SRL~  156 (213)
T d1l8qa2          86 GTINEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTL-------YLLEKQIILASDRHPQKLDGVSDRLVSRFE  156 (213)
T ss_dssp             TCHHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHH-------HHTTCEEEEEESSCGGGCTTSCHHHHHHHH
T ss_pred             cchhhHHHHHh--hccchhhhhhhhhcCchHHHHHHHHHHHHH-------hhccceEEEecCCcchhccccchHHHHHhh
Confidence            11223444454  34689999998652   3432 11111110       11678899999875432111        13


Q ss_pred             cceEEEcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHh
Q 038494          315 SQKIFLIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKC  357 (1209)
Q Consensus       315 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~  357 (1209)
                      ...+++++ .++++-.+++++.+....- .-.++++.-|++++
T Consensus       157 ~g~~~~i~-p~d~~~~~iL~~~a~~rgl-~l~~~v~~yl~~~~  197 (213)
T d1l8qa2         157 GGILVEIE-LDNKTRFKIIKEKLKEFNL-ELRKEVIDYLLENT  197 (213)
T ss_dssp             TSEEEECC-CCHHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHC
T ss_pred             CceEEEEC-CCcHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhc
Confidence            44677786 5777778888877742221 11234555555554

>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=97.66  E-value=4.3e-05  Score=79.15  Aligned_cols=155  Identities=12%  Similarity=0.170  Sum_probs=87.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKE  259 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  259 (1209)
                      .+.|.++|++|+|||++|+.++......  |     +.++    ...+    .   +.   ........++.+.......
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~--~-----~~~~----~~~l----~---~~---~~~~~~~~l~~~f~~A~~~   99 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN--F-----ISIK----GPEL----L---TM---WFGESEANVREIFDKARQA   99 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE--E-----EEEC----HHHH----H---TS---CTTTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc--E-----EEEE----HHHh----h---hc---cccchHHHHHHHHHHHHhc
Confidence            4578899999999999999999888642  1     2221    1111    1   11   1112234455555555556


Q ss_pred             CeEEEEEeCCCcccC--------c--------cccCCCCCCCCccccccccCCcEEEEeccchhhhcccC----CcceEE
Q 038494          260 KRVLIILDNIWKKLG--------L--------EEIGIPFGDVDEKDRKQDLRRRTIILTSRSKHLLTNDM----NSQKIF  319 (1209)
Q Consensus       260 k~~LlvlDdv~~~~~--------~--------~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~~v~~~~~----~~~~~~  319 (1209)
                      .+.+|++||++....        .        ..+...+....      ...+--||.||....-.....    .-...+
T Consensus       100 ~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~------~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i  173 (265)
T d1r7ra3         100 APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS------TKKNVFIIGATNRPDIIDPAILRPGRLDQLI  173 (265)
T ss_dssp             CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------------CCEEEECCBSCTTTSCGGGSSTTSEEEE
T ss_pred             CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcC------CCCCEEEEEeCCCchhCCHHHhCCCCccEEE
Confidence            789999999985421        0        11111111000      113445666777654332222    235689


Q ss_pred             EcCCCCHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHhCCChhH
Q 038494          320 LIEVLSKEEALQFFEKIVGNSAKASAFQPLADEIVGKCGGLPVA  363 (1209)
Q Consensus       320 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~~~glPLa  363 (1209)
                      +++..+.++-.++|+..........+  ....+|++++.|...|
T Consensus       174 ~~~~p~~~~R~~il~~~l~~~~~~~~--~~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         174 YIPLPDEKSRVAILKANLRKSPVAKD--VDLEFLAKMTNGFSGA  215 (265)
T ss_dssp             ECCCCCCHHHHHHHHHHTTCC----C--CCCHHHHHHHCSSCCH
T ss_pred             EecchHHHHHHHHHHHHhccCCchhh--hhHHHHHhcCCCCCHH
Confidence            99999999999999887753221111  1134778888876543

>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=97.56  E-value=3.4e-05  Score=84.28  Aligned_cols=182  Identities=14%  Similarity=0.147  Sum_probs=108.4

Q ss_pred             CCeEEEEccCCCCccCC-----Cc-CCCCCccEEEeccCCCcccc---cC--------hhhhcCCCCCcEEEecCcccc-
Q 038494          519 KGAIAISIPYGDIQELP-----ER-LECPQLKLLLLLANGDSYLE---IS--------HLFFEGTEDLKVLSLSGIHFS-  580 (1209)
Q Consensus       519 ~~~r~l~l~~~~~~~~~-----~~-~~~~~L~~L~l~~~~~~~~~---~~--------~~~~~~l~~Lr~L~L~~~~i~-  580 (1209)
                      ++++.+.+.++.+....     .. ..+++|++|.+.++......   +.        .......+.|+.++++++.+. 
T Consensus        93 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~  172 (344)
T d2ca6a1          93 PKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLEN  172 (344)
T ss_dssp             TTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTG
T ss_pred             CCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccc
Confidence            35677777777654321     11 14678888888776421110   00        011245677888888888765 


Q ss_pred             ----cccccccCCCCCcEEeccCcccCC------c-ccccCCCCCCEEEccCCCCC-----ccchhccCCCCCCEEeccC
Q 038494          581 ----SLSSSLGHLINLQTLCLDWCQLED------V-AAIGQLKKLEILSFRYSDIK-----QLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       581 ----~lp~~i~~l~~L~~L~l~~~~l~~------l-~~i~~L~~L~~L~l~~~~~~-----~lp~~i~~L~~L~~L~l~~  644 (1209)
                          .+...+..+.+|++|++++|.+..      + ..+..+++|++|++++|.+.     .+...+..+++|++|++++
T Consensus       173 ~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~  252 (344)
T d2ca6a1         173 GSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLND  252 (344)
T ss_dssp             GGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTT
T ss_pred             cccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhc
Confidence                244556677888888888888653      2 45677888888888888764     2445667788888888888


Q ss_pred             CCCCcccCch----hhcC--CCCCcEEECCCCCCccccccCCCccchhhh-CCCCCCCEEEeeccCCC
Q 038494          645 CSSLVVIAPN----VISK--FSRLEELYMGDSFPQWDKVEGGSNASLAEL-KGLSKLTTLEIQVQDAQ  705 (1209)
Q Consensus       645 ~~~l~~~~~~----~l~~--L~~L~~L~l~~~~~~~~~~~~~~~~~l~~L-~~l~~L~~L~l~~~~~~  705 (1209)
                      |. +......    .+.+  ...|++|++++|.+...    ........+ .++++|+.|+++++...
T Consensus       253 n~-i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~----~~~~l~~~l~~~~~~L~~L~l~~N~~~  315 (344)
T d2ca6a1         253 CL-LSARGAAAVVDAFSKLENIGLQTLRLQYNEIELD----AVRTLKTVIDEKMPDLLFLELNGNRFS  315 (344)
T ss_dssp             CC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHH----HHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             Cc-cCchhhHHHHHHhhhccCCCCCEEECCCCcCChH----HHHHHHHHHHccCCCCCEEECCCCcCC
Confidence            53 4332111    1222  35688888877642110    001112223 24667888888776653

>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=97.25  E-value=2.4e-05  Score=74.46  Aligned_cols=82  Identities=23%  Similarity=0.161  Sum_probs=52.5

Q ss_pred             hhhhcCCCCCcEEEecCccccccc---ccccCCCCCcEEeccCcccCCcccc--cCCCCCCEEEccCCCCCccch-----
Q 038494          560 HLFFEGTEDLKVLSLSGIHFSSLS---SSLGHLINLQTLCLDWCQLEDVAAI--GQLKKLEILSFRYSDIKQLPL-----  629 (1209)
Q Consensus       560 ~~~~~~l~~Lr~L~L~~~~i~~lp---~~i~~l~~L~~L~l~~~~l~~l~~i--~~L~~L~~L~l~~~~~~~lp~-----  629 (1209)
                      ..++.+++.|++|+|++|.++.++   ..+..+++|++|++++|.++.+..+  .+..+|+.|++++|.+.....     
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y  137 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTY  137 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHH
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhH
Confidence            344566788888888888877553   4466778888888888887776322  233457777777776653321     


Q ss_pred             ---hccCCCCCCEEe
Q 038494          630 ---EIGQLAQLQLLD  641 (1209)
Q Consensus       630 ---~i~~L~~L~~L~  641 (1209)
                         -+..+++|+.||
T Consensus       138 ~~~i~~~~P~L~~LD  152 (162)
T d1koha1         138 ISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHTTSTTCCEET
T ss_pred             HHHHHHHCCCCCEEC
Confidence               134566666665

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

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: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.05  E-value=0.0011  Score=64.63  Aligned_cols=131  Identities=14%  Similarity=0.105  Sum_probs=76.0

Q ss_pred             HHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhc--ccCCEEEEEEcC-CCcCHHHHHHHHHHHhCCCCCCCC
Q 038494          167 LFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMED--KVFDKVVMAEVT-ENPDVQKIQDKLASDLDLNFDLND  243 (1209)
Q Consensus       167 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~--~~f~~~~wv~~s-~~~~~~~l~~~i~~~l~~~~~~~~  243 (1209)
                      .++.+.+++..+....+.++|.+|+|||++|..+++.....  .|.| ++++... ....+.++. .+.+.+.....   
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR-~i~~~~~~~~~---   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIR-TIKDFLNYSPE---   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHH-HHHHHHTSCCS---
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHH-HHHHHHhhCcc---
Confidence            34566677777788999999999999999999999876532  2333 3444322 222333332 23333322110   


Q ss_pred             ChHHHHHHHHHHHhcCCeEEEEEeCCCccc--CccccCCCCCCCCccccccccCCcEEEEeccch-hhhcccCCcceEEE
Q 038494          244 SKPHRAKQLCQRLTKEKRVLIILDNIWKKL--GLEEIGIPFGDVDEKDRKQDLRRRTIILTSRSK-HLLTNDMNSQKIFL  320 (1209)
Q Consensus       244 ~~~~~~~~l~~~l~~~k~~LlvlDdv~~~~--~~~~l~~~~~~~~~~~~~~~~~~s~ilvTtR~~-~v~~~~~~~~~~~~  320 (1209)
                                    .+++-++|+|+++...  .+.++...+-...        .++.+|++|.+. .+..........+.
T Consensus        77 --------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp--------~~t~fiLit~~~~~ll~TI~SRC~~i~  134 (198)
T d2gnoa2          77 --------------LYTRKYVIVHDCERMTQQAANAFLKALEEPP--------EYAVIVLNTRRWHYLLPTIKSRVFRVV  134 (198)
T ss_dssp             --------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCC--------TTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             --------------cCCCEEEEEeCccccchhhhhHHHHHHhCCC--------CCceeeeccCChhhCHHHHhcceEEEe
Confidence                          2455699999999773  4444433222211        466666666554 34433335566777


Q ss_pred             cCCC
Q 038494          321 IEVL  324 (1209)
Q Consensus       321 l~~L  324 (1209)
                      +.+.
T Consensus       135 ~~~p  138 (198)
T d2gnoa2         135 VNVP  138 (198)
T ss_dssp             CCCC
T ss_pred             CCCc
Confidence            7644

>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=97.05  E-value=2.5e-05  Score=74.33  Aligned_cols=98  Identities=19%  Similarity=0.125  Sum_probs=61.1

Q ss_pred             CCcEEEecCcccccccccccCCCCCcEEeccCcccCCc----ccccCCCCCCEEEccCCCCCccch-hccCCCCCCEEec
Q 038494          568 DLKVLSLSGIHFSSLSSSLGHLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRYSDIKQLPL-EIGQLAQLQLLDL  642 (1209)
Q Consensus       568 ~Lr~L~L~~~~i~~lp~~i~~l~~L~~L~l~~~~l~~l----~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~L~l  642 (1209)
                      .+..+....+....++.....+++|++|++++|.++.+    ..+..+++|++|++++|.++.++. ...+..+|+.|++
T Consensus        43 ~~~~l~~~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L  122 (162)
T d1koha1          43 IDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWL  122 (162)
T ss_dssp             CCCCTTSHHHHHHHHHHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCC
T ss_pred             chhhcchhhhHhhhhHHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeec
Confidence            33333333333334444456788899999999988766    235678888888888888887764 2233456788888


Q ss_pred             cCCCCCcccCc-------hhhcCCCCCcEEE
Q 038494          643 SNCSSLVVIAP-------NVISKFSRLEELY  666 (1209)
Q Consensus       643 ~~~~~l~~~~~-------~~l~~L~~L~~L~  666 (1209)
                      .+ +.+.....       ..+..+++|+.|+
T Consensus       123 ~~-Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         123 DG-NSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             TT-STTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             CC-CCcCcCcccchhHHHHHHHHCCCCCEEC
Confidence            87 33332211       2245567777665

>d1qvra3 c.37.1.20 (A:536-850) 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=96.12  E-value=0.0016  Score=68.43  Aligned_cols=105  Identities=19%  Similarity=0.261  Sum_probs=56.5

Q ss_pred             chhhHHHHHHHHHHHHh-------CC--CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR-------ND--KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~-------~~--~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.++.++.+...+.       +.  ...++.++|+.|+|||.+|+.+++..-..  -...+-++.+.-.+...+.+ 
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~~-  100 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSR-  100 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGGG-
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhhhh-
Confidence            35677777777766554       11  23478899999999999999999887321  11233344443322111100 


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                         -+|.+..-..  ......+.+.+.+....+|+||+++..
T Consensus       101 ---L~g~~~gyvG--~~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         101 ---LIGAPPGYVG--YEEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             ---C----------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             ---hcCCCCCCcC--cccCChHHHHHHhCCCcEEEEehHhhc
Confidence               0111100000  001123445555566799999999976

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.08  E-value=0.0027  Score=61.00  Aligned_cols=38  Identities=13%  Similarity=0.067  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE  217 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  217 (1209)
                      +..+|.|+|++|+||||+|+.+++..... +++...++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhhh
Confidence            34689999999999999999999988653 355555554

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.06  E-value=0.02  Score=57.72  Aligned_cols=85  Identities=15%  Similarity=0.187  Sum_probs=60.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCC----CCChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDL----NDSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~----~~~~~~~~~~l~~~  255 (1209)
                      .+++-|+|.+|+||||+|.+++......  -..++|++....++.+.     +++++.+.+.    .....+.+-.+.+.
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~  132 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADM  132 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4799999999999999999988776654  34689999999988764     5566665432    11223444444444


Q ss_pred             Hh-cCCeEEEEEeCCCc
Q 038494          256 LT-KEKRVLIILDNIWK  271 (1209)
Q Consensus       256 l~-~~k~~LlvlDdv~~  271 (1209)
                      +. +++.-|||+|.+-.
T Consensus       133 l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         133 LIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHTTCEEEEEEECSTT
T ss_pred             HHhcCCCCEEEEecccc
Confidence            43 45678999999854

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.98  E-value=0.0034  Score=59.29  Aligned_cols=59  Identities=12%  Similarity=0.077  Sum_probs=27.0

Q ss_pred             cCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCC-----c-ccccCCCCCCEEEccCC
Q 038494          564 EGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRYS  622 (1209)
Q Consensus       564 ~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~-----l-~~i~~L~~L~~L~l~~~  622 (1209)
                      ...+.|+.|+|++|.+.     .+...+...+.|+.|++++|.+..     + ..+...+.|++|+++++
T Consensus        41 ~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          41 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             hhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            44455555555555543     122333444455555555554432     1 23344444445544444

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {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: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.94  E-value=0.017  Score=55.84  Aligned_cols=90  Identities=18%  Similarity=0.151  Sum_probs=55.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcC--HHHHHHHHHHHhCCCCCCC---CChHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPD--VQKIQDKLASDLDLNFDLN---DSKPHRAKQL  252 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~--~~~l~~~i~~~l~~~~~~~---~~~~~~~~~l  252 (1209)
                      ....||.++|+.|+||||-+..++...+.+   ...+.+-..+.+.  ..+-++..++.++.+....   .+....+...
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~---g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQ---GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTT---TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC---CCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            345799999999999999888888877632   2234444445554  3566677788888775332   2323333333


Q ss_pred             HHHHhcCCeEEEEEeCCC
Q 038494          253 CQRLTKEKRVLIILDNIW  270 (1209)
Q Consensus       253 ~~~l~~~k~~LlvlDdv~  270 (1209)
                      .........=+|++|-.-
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            333322233477778765

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.83  E-value=0.017  Score=55.84  Aligned_cols=61  Identities=20%  Similarity=0.220  Sum_probs=46.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      ++.++|.++|+.|+||||.+..++.....++  ..+..+++.. .....+-++..++.++.+..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   65 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVI   65 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhcccccCceEE
Confidence            4567999999999999999888888776432  3577777653 45677778888888887653

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.78  E-value=0.0075  Score=56.82  Aligned_cols=83  Identities=17%  Similarity=0.188  Sum_probs=56.6

Q ss_pred             hhcCCCCCcEEEecCc-ccc-----cccccccCCCCCcEEeccCcccCC-----c-ccccCCCCCCEEEccCCCCCc---
Q 038494          562 FFEGTEDLKVLSLSGI-HFS-----SLSSSLGHLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRYSDIKQ---  626 (1209)
Q Consensus       562 ~~~~l~~Lr~L~L~~~-~i~-----~lp~~i~~l~~L~~L~l~~~~l~~-----l-~~i~~L~~L~~L~l~~~~~~~---  626 (1209)
                      +..+.+.|+.|+|+++ .++     .+-..+....+|++|++++|.+..     + ..+...+.|++|++++|.+..   
T Consensus        10 l~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~   89 (167)
T d1pgva_          10 LREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELL   89 (167)
T ss_dssp             HHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHH
T ss_pred             HHhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHH
Confidence            3456688888888874 454     234456777888999999888653     2 455566778888888887662   


Q ss_pred             --cchhccCCCCCCEEeccC
Q 038494          627 --LPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       627 --lp~~i~~L~~L~~L~l~~  644 (1209)
                        +-..+...+.|++|++++
T Consensus        90 ~~l~~aL~~n~sL~~L~l~~  109 (167)
T d1pgva_          90 ARLLRSTLVTQSIVEFKADN  109 (167)
T ss_dssp             HHHHHHTTTTCCCSEEECCC
T ss_pred             HHHHHHHHhCCcCCEEECCC
Confidence              333456667777777766

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.73  E-value=0.018  Score=58.13  Aligned_cols=86  Identities=20%  Similarity=0.186  Sum_probs=60.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC----CChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN----DSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~----~~~~~~~~~l~~~  255 (1209)
                      .+++-|+|.+|+|||++|.+++.......  ..++|++....++.+     +++++|.+.+..    ....+..-.+.+.
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~  129 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  129 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHHH
Confidence            46999999999999999999988765432  468999999988885     567777764431    1223333344445


Q ss_pred             Hh-cCCeEEEEEeCCCcc
Q 038494          256 LT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       256 l~-~~k~~LlvlDdv~~~  272 (1209)
                      +. +++.-|||+|-+-..
T Consensus       130 l~~~~~~~liIiDSi~al  147 (268)
T d1xp8a1         130 LVRSGAIDVVVVDSVAAL  147 (268)
T ss_dssp             HHTTTCCSEEEEECTTTC
T ss_pred             HHhcCCCcEEEEeccccc
Confidence            54 345678999988543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {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: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=95.62  E-value=0.0034  Score=59.54  Aligned_cols=28  Identities=25%  Similarity=0.488  Sum_probs=24.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .++|+|+|..|+|||||+.++.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            4799999999999999999999887653

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=95.58  E-value=0.0032  Score=60.94  Aligned_cols=26  Identities=23%  Similarity=0.357  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++.|+|.|++|+||||||+.+++...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999988653

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {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: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=95.56  E-value=0.0026  Score=60.07  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.|.|+|++|+||||+|+.++....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998764

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.53  E-value=0.027  Score=54.40  Aligned_cols=60  Identities=17%  Similarity=0.200  Sum_probs=42.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      +.+||.++|+.|+||||.+..++.....+ . ..+..+++.. .....+-++..++.++.+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   69 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGK-G-RRPLLVAADTQRPAAREQLRLLGEKVGVPVL   69 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT-T-CCEEEEECCSSCHHHHHHHHHHHHHHTCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEecccccchHHHHHHHHHHhcCCccc
Confidence            45789999999999999988888877643 2 3455555532 23455667777888877643

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.50  E-value=0.0065  Score=57.24  Aligned_cols=85  Identities=14%  Similarity=0.144  Sum_probs=46.3

Q ss_pred             hhhhcCCCCCcEEEecC-cccc-----cccccccCCCCCcEEeccCcccCCc------ccccCCCCCCEEEccCCCCC--
Q 038494          560 HLFFEGTEDLKVLSLSG-IHFS-----SLSSSLGHLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRYSDIK--  625 (1209)
Q Consensus       560 ~~~~~~l~~Lr~L~L~~-~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~l------~~i~~L~~L~~L~l~~~~~~--  625 (1209)
                      ..+..+.+.|+.|++++ +.++     .+-..+...++|+.|++++|.+..-      ..+...+.++.+++++|.+.  
T Consensus        10 ~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~   89 (166)
T d1io0a_          10 KRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGS   89 (166)
T ss_dssp             HHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             HHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccch
Confidence            33445566777777765 3343     2334455666677777777665332      34445566666666665543  


Q ss_pred             ---ccchhccCCCCCCEEeccC
Q 038494          626 ---QLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       626 ---~lp~~i~~L~~L~~L~l~~  644 (1209)
                         .+...+...++|+.+++..
T Consensus        90 g~~~l~~~l~~~~~L~~l~L~l  111 (166)
T d1io0a_          90 GILALVEALQSNTSLIELRIDN  111 (166)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCC
T ss_pred             hHHHHHHHHHhCccccEEeecc
Confidence               2233445555566555543

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.44  E-value=0.07  Score=53.42  Aligned_cols=101  Identities=25%  Similarity=0.349  Sum_probs=63.7

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC--C-------
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN--F-------  239 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~--~-------  239 (1209)
                      .++.+. =.+...+.|.|.+|+|||+|+..+++.... .+-+.++++-+.+.. ...++++.+.+.--..  .       
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvv  136 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVAL  136 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEE
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEE
Confidence            444444 233456899999999999999999987543 234567888888764 4666777766532111  0       


Q ss_pred             ---CCCCCh------HHHHHHHHHHHh-c-CCeEEEEEeCCCcc
Q 038494          240 ---DLNDSK------PHRAKQLCQRLT-K-EKRVLIILDNIWKK  272 (1209)
Q Consensus       240 ---~~~~~~------~~~~~~l~~~l~-~-~k~~LlvlDdv~~~  272 (1209)
                         ......      ....-.+-+++. + ++.+|+++||+...
T Consensus       137 v~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~  180 (276)
T d2jdid3         137 VYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  180 (276)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHH
Confidence               001111      112234566665 3 89999999998654

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.38  E-value=0.01  Score=59.89  Aligned_cols=41  Identities=27%  Similarity=0.395  Sum_probs=33.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ...++.|+|.+|+|||++|.+++......  ...++|++....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~~--~~~~~~is~e~~   65 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYEES   65 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh--ccccceeeccCC
Confidence            35699999999999999999999887643  566888887554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=95.31  E-value=0.029  Score=56.51  Aligned_cols=85  Identities=20%  Similarity=0.269  Sum_probs=57.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCC----CChHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLN----DSKPHRAKQLCQR  255 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~----~~~~~~~~~l~~~  255 (1209)
                      .+++-|+|.+|+||||+|.+++......  =..++|++....++..     .++.++.+.+..    ....+..-.+.+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~  126 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  126 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcC--CCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHH
Confidence            4699999999999999999999887654  2468999999888875     356667653321    1123333333444


Q ss_pred             Hh-cCCeEEEEEeCCCc
Q 038494          256 LT-KEKRVLIILDNIWK  271 (1209)
Q Consensus       256 l~-~~k~~LlvlDdv~~  271 (1209)
                      +. +++.-|||+|-+..
T Consensus       127 l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         127 LARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhcCCCCEEEEECccc
Confidence            43 34556889998854

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.27  E-value=0.0048  Score=57.17  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ++|.|.|++|+||||+|+++..+.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999886543

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=95.26  E-value=0.0048  Score=58.73  Aligned_cols=24  Identities=38%  Similarity=0.589  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ++|.|.|++|+||||+|+.++...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            689999999999999999998654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.22  E-value=0.031  Score=53.97  Aligned_cols=61  Identities=18%  Similarity=0.179  Sum_probs=39.2

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      ....||.++|+.|+||||.+..++...+.+ . ..+..|++.. .....+-++..++.++.+..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~   71 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKK-G-FKVGLVGADVYRPAALEQLQQLGQQIGVPVY   71 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHT-T-CCEEEEECCCSSHHHHHHHHHHHHHHTCCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CceEEEEeeccccchhHHHHHhccccCccee
Confidence            345789999999999999888888777643 2 2466676643 33455566777888887653

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.17  E-value=0.052  Score=52.40  Aligned_cols=61  Identities=21%  Similarity=0.263  Sum_probs=44.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC-CcCHHHHHHHHHHHhCCCCC
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE-NPDVQKIQDKLASDLDLNFD  240 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~-~~~~~~l~~~i~~~l~~~~~  240 (1209)
                      .+..+|.++|+.|+||||-+..++.....++  ..+..+++.. .....+-++..++.++.+..
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   70 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIWGERVGATVI   70 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHHhhhcCcccc
Confidence            3456899999999999998888887775432  4566676653 34556677788888887653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.08  E-value=0.007  Score=58.22  Aligned_cols=27  Identities=30%  Similarity=0.436  Sum_probs=24.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      +.|.|+|++|+|||||+++++.....+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            568999999999999999999888654

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=95.06  E-value=0.0056  Score=58.13  Aligned_cols=25  Identities=44%  Similarity=0.461  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.|.|.|++|+||||+|+.++++..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999998764

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.04  E-value=0.007  Score=58.79  Aligned_cols=28  Identities=21%  Similarity=0.328  Sum_probs=24.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ..+|.++|++|+||||+|+.++......
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4688899999999999999999887653

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.98  E-value=0.013  Score=56.95  Aligned_cols=31  Identities=29%  Similarity=0.539  Sum_probs=25.8

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ..+.-+|+|.|.+|.||||||+.+.+.....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            3444589999999999999999999887653

>d1r6bx3 c.37.1.20 (X:437-751) 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=94.98  E-value=0.0089  Score=62.75  Aligned_cols=102  Identities=18%  Similarity=0.202  Sum_probs=58.1

Q ss_pred             chhhHHHHHHHHHHHHh---------CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHH
Q 038494          160 AFDSRMKLFQDVVEALR---------NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDK  230 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~---------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~  230 (1209)
                      .++|.++.++.+...+.         +....++.++|++|+|||.||+.+++-..     ...+-++++.-.+...    
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~-----~~~i~~d~s~~~~~~~----   93 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----   93 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC----
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc-----CCeeEeccccccchhh----
Confidence            45677777887777664         12245788999999999999999998753     2344455543211100    


Q ss_pred             HHHHhCCCCCCCCChHHHHHHHHHHHhcCCeEEEEEeCCCcc
Q 038494          231 LASDLDLNFDLNDSKPHRAKQLCQRLTKEKRVLIILDNIWKK  272 (1209)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlvlDdv~~~  272 (1209)
                      +.+-++.+..  -........+...+......+++||+++..
T Consensus        94 ~~~l~g~~~g--y~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          94 VSRLIGAPPG--YVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             CSSSCCCCSC--SHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             hhhhcccCCC--ccccccCChhhHHHHhCccchhhhcccccc
Confidence            0000111100  000111122444444456789999999976

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {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: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.79  E-value=0.0093  Score=56.40  Aligned_cols=28  Identities=25%  Similarity=0.475  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+.+++.|.|++|+||||+|+.++....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568999999999999999999998764

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=94.75  E-value=0.0077  Score=56.36  Aligned_cols=24  Identities=38%  Similarity=0.482  Sum_probs=21.7

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      |.|+|++|+||||+|+.++.+...
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            778899999999999999999853

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.72  E-value=0.0066  Score=57.15  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|.++|++|+||||+|+.+++....
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3567799999999999999988753

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=94.70  E-value=0.0085  Score=58.15  Aligned_cols=28  Identities=32%  Similarity=0.347  Sum_probs=24.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+..+|.|+|++|+||||+|+.+++...
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4567999999999999999999987653

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.63  E-value=0.039  Score=56.91  Aligned_cols=71  Identities=17%  Similarity=0.282  Sum_probs=46.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHhcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDLDLNFDLNDSKPHRAKQLCQRLTKEK  260 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k  260 (1209)
                      .++.++|++|+|||.||+.++.....+..|-   -+..++-.+                ....+.+..++.+.+...  +
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~---~~~~~~~~~----------------~~~G~~e~~~~~~f~~a~--~  182 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYA---TVRFGEPLS----------------GYNTDFNVFVDDIARAML--Q  182 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCE---EEEBSCSST----------------TCBCCHHHHHHHHHHHHH--H
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeE---EEEhhHhhh----------------cccchHHHHHHHHHHHHh--h
Confidence            4566799999999999999999876443342   233333221                111122556667777665  3


Q ss_pred             eEEEEEeCCCcc
Q 038494          261 RVLIILDNIWKK  272 (1209)
Q Consensus       261 ~~LlvlDdv~~~  272 (1209)
                      +.+|++|.++..
T Consensus       183 ~~ilf~DEid~~  194 (321)
T d1w44a_         183 HRVIVIDSLKNV  194 (321)
T ss_dssp             CSEEEEECCTTT
T ss_pred             ccEEEeehhhhh
Confidence            569999999765

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.56  E-value=0.0099  Score=57.21  Aligned_cols=27  Identities=26%  Similarity=0.441  Sum_probs=24.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ++|+|.|++|+||||+++.+++....+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999887653

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.54  E-value=0.013  Score=54.93  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=24.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ++++|+|..|+|||||+.++....+.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999999988764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase 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: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=94.51  E-value=0.035  Score=56.10  Aligned_cols=99  Identities=20%  Similarity=0.271  Sum_probs=56.0

Q ss_pred             HHHHHHhC-CCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEE-cCCCcCHHHHHHHHHHHhCCC---CCCCCC
Q 038494          170 DVVEALRN-DKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAE-VTENPDVQKIQDKLASDLDLN---FDLNDS  244 (1209)
Q Consensus       170 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~-~s~~~~~~~l~~~i~~~l~~~---~~~~~~  244 (1209)
                      ++++.+.. .+...+.|.|.+|+|||+|+..+++..... +-+.++.+. +.+..  +++ .++.+.....   ......
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~-~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH-CTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEeeceeH--HHH-HhHHhhcceEEEeccCCCc
Confidence            45666652 345688999999999999999999877653 344444333 33322  222 2222222111   011111


Q ss_pred             h------HHHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          245 K------PHRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       245 ~------~~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      .      ....-.+-+++. +++.+|+++||+...
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~  142 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRL  142 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHH
Confidence            1      122234555554 479999999998754

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=94.49  E-value=0.0087  Score=56.59  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.|.++|++|+||||+|+.+++....
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35778999999999999999988763

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=94.40  E-value=0.011  Score=56.18  Aligned_cols=26  Identities=19%  Similarity=0.326  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.|.|.+|+||||+|+.+++...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999988764

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=94.40  E-value=0.012  Score=55.75  Aligned_cols=27  Identities=33%  Similarity=0.372  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.-.|.|.|++|+||||+|+.+++...
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            445789999999999999999987753

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {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: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.34  E-value=0.012  Score=57.02  Aligned_cols=28  Identities=32%  Similarity=0.445  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++.++|.|.|++|+||||+|+.+++...
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999999988653

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=94.21  E-value=0.028  Score=54.71  Aligned_cols=31  Identities=29%  Similarity=0.460  Sum_probs=26.5

Q ss_pred             hCCCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          176 RNDKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       176 ~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ...+..+|.+.|++|.||||+|+++++....
T Consensus        20 ~~~kg~vIwltGlsGsGKTTia~~L~~~l~~   50 (208)
T d1m7ga_          20 RNQRGLTIWLTGLSASGKSTLAVELEHQLVR   50 (208)
T ss_dssp             HTSSCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             hCCCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3566789999999999999999999987643

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

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: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.16  E-value=0.014  Score=61.03  Aligned_cols=46  Identities=28%  Similarity=0.267  Sum_probs=34.3

Q ss_pred             chhhHHHHHHHHHHHHh--------------CCCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALR--------------NDKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~--------------~~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++|.++.++.+..++.              ....+.+.++|++|+|||.||+.+++...
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            35677777777766551              11346677999999999999999998764

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.08  E-value=0.032  Score=57.47  Aligned_cols=52  Identities=25%  Similarity=0.395  Sum_probs=40.4

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      +..+.+.+...+.++|.+.|-||+||||+|..++.....+.  ..+.-|+....
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G--~rVllvD~Dp~   59 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG--FDVHLTTSDPA   59 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESCCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCCC
Confidence            45667777788899999999999999999999988876543  24666666543

>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=94.06  E-value=0.023  Score=53.24  Aligned_cols=105  Identities=13%  Similarity=0.057  Sum_probs=71.4

Q ss_pred             CCCccEEEeccCC-Ccccc--cChhhhcCCCCCcEEEecCcccc-----cccccccCCCCCcEEeccCcccCC-----c-
Q 038494          540 CPQLKLLLLLANG-DSYLE--ISHLFFEGTEDLKVLSLSGIHFS-----SLSSSLGHLINLQTLCLDWCQLED-----V-  605 (1209)
Q Consensus       540 ~~~L~~L~l~~~~-~~~~~--~~~~~~~~l~~Lr~L~L~~~~i~-----~lp~~i~~l~~L~~L~l~~~~l~~-----l-  605 (1209)
                      .++|+.|.+.+.. .....  .....+...++|+.|++++|.++     .+-..+.....++.+++++|.+..     + 
T Consensus        16 ~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~   95 (166)
T d1io0a_          16 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALV   95 (166)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHH
T ss_pred             CCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHH
Confidence            4677777776532 11111  11223467889999999999886     244556778899999999998643     3 


Q ss_pred             ccccCCCCCCEEEccC--CCCC-----ccchhccCCCCCCEEeccC
Q 038494          606 AAIGQLKKLEILSFRY--SDIK-----QLPLEIGQLAQLQLLDLSN  644 (1209)
Q Consensus       606 ~~i~~L~~L~~L~l~~--~~~~-----~lp~~i~~L~~L~~L~l~~  644 (1209)
                      ..+...+.|+.+++..  +.+.     .+...+.+.+.|++|++..
T Consensus        96 ~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~  141 (166)
T d1io0a_          96 EALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHF  141 (166)
T ss_dssp             HGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             HHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcC
Confidence            6778888999877754  4554     3445566778888888765

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.91  E-value=0.015  Score=57.14  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+|.++|.+|+||||+|+++++....
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=93.86  E-value=0.014  Score=55.30  Aligned_cols=25  Identities=32%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..++|.|.|++|+||||+|+.+++.
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999654

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=93.67  E-value=0.031  Score=57.33  Aligned_cols=27  Identities=26%  Similarity=0.279  Sum_probs=23.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+.|.++|++|+||||+|+.++.....
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~~~   58 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEETQG   58 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhhc
Confidence            456889999999999999999987753

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {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: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.58  E-value=0.02  Score=54.37  Aligned_cols=24  Identities=50%  Similarity=0.674  Sum_probs=22.1

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHhh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      |+|+|++|+|||||++.++.....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999988764

>d1ckea_ c.37.1.1 (A:) CMP kinase {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: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=93.50  E-value=0.02  Score=56.86  Aligned_cols=42  Identities=31%  Similarity=0.334  Sum_probs=32.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASD  234 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~  234 (1209)
                      .++|+|.|++|+||||+|+.++++....    .         .+.-+++++++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl~----~---------iStGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQWH----L---------LDSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCE----E---------EEHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCc----E---------ECHHHHHHHHHHH
Confidence            4699999999999999999999998632    1         2456677776653

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=93.30  E-value=0.025  Score=54.47  Aligned_cols=26  Identities=31%  Similarity=0.470  Sum_probs=23.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ++|.|.|++|+||||+|+.+++....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999988865

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.26  E-value=0.089  Score=52.75  Aligned_cols=48  Identities=15%  Similarity=0.052  Sum_probs=34.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~~  226 (1209)
                      ..+++.|.|.+|+||||+|.+++........    -..++|++....+....
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            3469999999999999999999765432211    24678888877665433

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {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: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.25  E-value=0.018  Score=54.20  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      +...+|.++|++|+||||+|+..+.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456999999999999999998754

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=92.96  E-value=0.074  Score=55.34  Aligned_cols=55  Identities=18%  Similarity=0.350  Sum_probs=38.3

Q ss_pred             HHHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc
Q 038494          168 FQDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP  222 (1209)
Q Consensus       168 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~  222 (1209)
                      ..++++.+.  ..+..+|+|.|++|+|||||..++........+=-.++=++.+.++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHH
Confidence            445555553  4567899999999999999999999876643322355555555544

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.82  E-value=0.031  Score=53.89  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+|.|.|++|+||||+|+.+++...
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999998663

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {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: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=92.68  E-value=0.11  Score=54.03  Aligned_cols=64  Identities=16%  Similarity=0.254  Sum_probs=36.0

Q ss_pred             HHHHHHHh--CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          169 QDVVEALR--NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       169 ~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      .++++.+.  .++..+|+|+|.+|+|||||...+......+.+=-.++=++.+.+++-..++.+-.
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~  106 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKT  106 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-------------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchh
Confidence            44554443  35678999999999999999999998877643222444455555555554544433

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

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: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=92.62  E-value=0.023  Score=60.35  Aligned_cols=47  Identities=21%  Similarity=0.251  Sum_probs=35.4

Q ss_pred             cccchhhHHHHHHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          157 DFEAFDSRMKLFQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       157 ~~~~~~gR~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      +...++|.+..+..|.-.....+..-|.+.|.+|+||||+|+.++.-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            46688999887776554443333345889999999999999999864

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=92.40  E-value=0.035  Score=54.94  Aligned_cols=41  Identities=24%  Similarity=0.202  Sum_probs=31.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      +|+|-|++|+||||+|+.++.+....       +      .+.-++++.++...
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg~~-------~------istGdl~R~~a~~~   45 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFGFT-------Y------LDTGAMYRAATYMA   45 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHCCE-------E------EEHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCc-------E------ECHHHHHHHHHHHH
Confidence            68899999999999999999988632       1      24556777766543

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=92.35  E-value=0.035  Score=52.85  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             EEEEcCCCChHHHHHHHHHHHHh
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      |.|.|++|+||||+|+.+++...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            78999999999999999988763

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.31  E-value=0.035  Score=54.43  Aligned_cols=26  Identities=27%  Similarity=0.446  Sum_probs=23.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      -+|+|.|..|.||||+|+.+.+....
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            48999999999999999999987653

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=92.30  E-value=0.039  Score=56.46  Aligned_cols=38  Identities=16%  Similarity=0.385  Sum_probs=30.3

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      +.|+|+|-||+||||+|..++.......  ..+.-|++..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G--~rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT--CCEEEEEECT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC--CcEEEEecCC
Confidence            6899999999999999999999887542  2466666643

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.21  E-value=0.033  Score=53.39  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=21.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .|+|+|++|+|||||++.+++....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~   26 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSS   26 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCC
Confidence            4789999999999999999887653

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=92.14  E-value=0.04  Score=53.12  Aligned_cols=25  Identities=36%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      .++|.|.|++|.||||+|+.+++..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998864

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=92.00  E-value=0.3  Score=47.21  Aligned_cols=52  Identities=17%  Similarity=0.235  Sum_probs=33.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLA  232 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~  232 (1209)
                      .+.|+|-|+.|+||||+++.+.+..... .+..+.+..-.......+.++...
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~-g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhC-CCCeEEEecCCCCccchhhhHHHH
Confidence            3579999999999999999999887653 244444443322223333444433

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=91.89  E-value=0.041  Score=52.70  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -.|.|.|++|+||||+|+.+++..
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            356788999999999999998764

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=91.80  E-value=0.044  Score=52.11  Aligned_cols=24  Identities=29%  Similarity=0.373  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|.||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377999999999999999998864

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=91.78  E-value=0.044  Score=52.04  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            378899999999999999998874

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {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: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.75  E-value=0.36  Score=48.58  Aligned_cols=78  Identities=17%  Similarity=0.071  Sum_probs=48.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccC-CEEEEEEcCCCcCHHHHHHHHHHHhCC-------CCCCCCChHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVF-DKVVMAEVTENPDVQKIQDKLASDLDL-------NFDLNDSKPHRAKQ  251 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~s~~~~~~~l~~~i~~~l~~-------~~~~~~~~~~~~~~  251 (1209)
                      .-+|+|.|..|+||||||..+......+..+ ..+.-++..+-+-..+-...+.+....       ..+...+ ......
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD-~~ll~~  105 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHD-MKLLQE  105 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBC-HHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchh-HHHHHH
Confidence            3488999999999999999998777554323 246666766554434434455554321       1122233 566677


Q ss_pred             HHHHHhc
Q 038494          252 LCQRLTK  258 (1209)
Q Consensus       252 l~~~l~~  258 (1209)
                      ....|.+
T Consensus       106 ~l~~l~~  112 (286)
T d1odfa_         106 VLNTIFN  112 (286)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHHh
Confidence            7777764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.74  E-value=0.04  Score=52.66  Aligned_cols=26  Identities=31%  Similarity=0.485  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.|+|+|++|+|||||++.++++...
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~   27 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCc
Confidence            45789999999999999999887643

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=91.68  E-value=0.1  Score=53.92  Aligned_cols=48  Identities=23%  Similarity=0.360  Sum_probs=36.0

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHH
Q 038494          177 NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       177 ~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~  226 (1209)
                      +...++|.+.|-||+||||+|..++.....+.  ..+.-|++....++..
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G--~rVLlvD~Dp~~~l~~   52 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPASNVGQ   52 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCCHHH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHHCC--CCEEEEeCCCCCCHHH
Confidence            44567899999999999999999998887642  2467777665544443

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=91.68  E-value=0.048  Score=51.85  Aligned_cols=25  Identities=24%  Similarity=0.510  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ++|.|+|++|+|||||++.+.++..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5889999999999999999876653

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=91.67  E-value=0.045  Score=52.47  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.+++...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578999999999999999987764

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {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: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.16  E-value=0.056  Score=51.22  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|+||||+|+.+++...
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            355789999999999999988763

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.14  E-value=0.13  Score=49.76  Aligned_cols=28  Identities=18%  Similarity=0.338  Sum_probs=24.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ...|+|-|+.|+||||+|+.+++....+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3579999999999999999999988764

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {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: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=91.14  E-value=0.42  Score=48.75  Aligned_cols=42  Identities=19%  Similarity=0.177  Sum_probs=29.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      .-+|+|.|.+|+||||+|+.+.........-..+.-++...-
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            468999999999999999999888753211123444555443

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=91.13  E-value=0.068  Score=51.14  Aligned_cols=25  Identities=28%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .++| |.|++|+||||+|+.+++...
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            4455 789999999999999987653

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.01  E-value=0.062  Score=50.67  Aligned_cols=25  Identities=16%  Similarity=0.321  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +.|.|+|++|+|||||++++..+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            5789999999999999999887654

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.85  E-value=0.19  Score=50.39  Aligned_cols=48  Identities=25%  Similarity=0.255  Sum_probs=36.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhc----ccCCEEEEEEcCCCcCHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMED----KVFDKVVMAEVTENPDVQKI  227 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~s~~~~~~~l  227 (1209)
                      .+++.|+|.+|+||||+|.+++......    .....++|+......+...+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            4799999999999999999998776422    12357788888777665444

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {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: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=90.68  E-value=0.064  Score=50.74  Aligned_cols=24  Identities=25%  Similarity=0.115  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|.|.|++|.||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999997764

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=90.33  E-value=0.13  Score=51.03  Aligned_cols=42  Identities=21%  Similarity=0.109  Sum_probs=29.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCC
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTEN  221 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~  221 (1209)
                      ...++.|.|.+|+|||++|.+++....... -..++|++....
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~~-~~~~~~~s~e~~   66 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEF-DEPGVFVTFEET   66 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCcccccccCC
Confidence            356899999999999999988765443321 234667766543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {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: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.18  E-value=0.082  Score=52.81  Aligned_cols=46  Identities=17%  Similarity=0.256  Sum_probs=34.3

Q ss_pred             chhhHHHHHHHHHHHHhC--CCceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          160 AFDSRMKLFQDVVEALRN--DKLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       160 ~~~gR~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .|||....++++.+.+..  ....-|.|+|..|+|||++|+.+++...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~   48 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD   48 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            367777777887777762  2223468999999999999999986543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=90.15  E-value=0.085  Score=54.44  Aligned_cols=38  Identities=24%  Similarity=0.420  Sum_probs=29.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      +.|+|.|-||+||||+|..++......+  ..+.-|++..
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G--~rVLlID~Dp   40 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCDP   40 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEECS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCC--CCEEEEecCC
Confidence            6788999999999999999998886542  2466677654

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=89.87  E-value=0.73  Score=46.54  Aligned_cols=53  Identities=28%  Similarity=0.219  Sum_probs=36.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ..++.|.|.+|+|||++|.+++.+...+..+ .+.+++..  .+..++...++...
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHh
Confidence            3588999999999999999999876543223 35555543  44566655555443

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=89.83  E-value=0.094  Score=50.61  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+|.|+|++|+|||||.+.+..+..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35889999999999999999987753

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=89.56  E-value=0.077  Score=50.79  Aligned_cols=20  Identities=40%  Similarity=0.611  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~  200 (1209)
                      -+|+|+|..|+||||+|..+
T Consensus         4 ~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999877

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=89.52  E-value=0.27  Score=49.21  Aligned_cols=90  Identities=16%  Similarity=0.180  Sum_probs=53.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCCCc-CHHHHHHHHHHHhCCC-------CCCCCC-----hHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTENP-DVQKIQDKLASDLDLN-------FDLNDS-----KPH  247 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~~~-~~~~l~~~i~~~l~~~-------~~~~~~-----~~~  247 (1209)
                      ..+.|+|.+|+|||+|+.........  +-..++++-+.+.. ...++.+.+.+.-...       ..+++.     ...
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~--~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~  145 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQG--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPY  145 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCT--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhcc--cCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHH
Confidence            45789999999999999886655432  24577788777764 2333333333221000       001111     123


Q ss_pred             HHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          248 RAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       248 ~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                      ..-.+-+++. ++++.|+++||+...
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dsltr~  171 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLSKQ  171 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             HHHHHHHHHHHcCCceeEEeeccHHH
Confidence            3344555555 479999999998654

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

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: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=89.42  E-value=0.21  Score=52.74  Aligned_cols=29  Identities=24%  Similarity=0.100  Sum_probs=25.6

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ++.+.+.++|++|+|||++|..+++....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            45578999999999999999999988764

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=89.36  E-value=0.16  Score=50.15  Aligned_cols=38  Identities=26%  Similarity=0.383  Sum_probs=31.1

Q ss_pred             eEEEEE-cCCCChHHHHHHHHHHHHhhcccCCEEEEEEcCC
Q 038494          181 NIIGVH-GMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVTE  220 (1209)
Q Consensus       181 ~vi~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s~  220 (1209)
                      ++|+|+ |-||+||||+|..++.....+  -..+.+|++..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~--g~~VlliD~D~   40 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQL--GHDVTIVDADI   40 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHT--TCCEEEEECCC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEeCCC
Confidence            688888 889999999999999888753  34688888754

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.23  E-value=0.17  Score=49.06  Aligned_cols=26  Identities=31%  Similarity=0.625  Sum_probs=23.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      .|+|-|.-|+||||+++.+.+....+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58999999999999999999888654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=88.83  E-value=0.13  Score=51.41  Aligned_cols=25  Identities=32%  Similarity=0.513  Sum_probs=22.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      ||+|.|+.|.|||||..++.+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            7899999999999999999876543

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.76  E-value=0.42  Score=47.66  Aligned_cols=48  Identities=15%  Similarity=0.144  Sum_probs=36.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh----cccCCEEEEEEcCCCcCHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME----DKVFDKVVMAEVTENPDVQK  226 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~----~~~f~~~~wv~~s~~~~~~~  226 (1209)
                      ..+++.|+|.+|+|||++|.+++.....    ...+..+.|+.....+....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHH
Confidence            3479999999999999999999976532    22356788888877766443

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=88.67  E-value=0.26  Score=44.42  Aligned_cols=30  Identities=27%  Similarity=0.397  Sum_probs=25.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHHHHhhc
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~  207 (1209)
                      ....+|.+.|.=|+||||+++.+++...++
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            345689999999999999999999887654

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=88.55  E-value=0.074  Score=53.67  Aligned_cols=28  Identities=29%  Similarity=0.414  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.++|+|.|.+|.||||+|+.+.+....
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            5679999999999999999999887754

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=88.50  E-value=0.12  Score=47.46  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999998665

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.42  E-value=0.29  Score=47.44  Aligned_cols=28  Identities=25%  Similarity=0.373  Sum_probs=24.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      +.+.|+|-|+-|+||||+++.+++..+.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4578999999999999999999988764

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.41  E-value=1.2  Score=44.46  Aligned_cols=102  Identities=16%  Similarity=0.187  Sum_probs=56.4

Q ss_pred             HHHHHh-CCCceEEEEEcCCCChHHHHHHHHHHHHhhcc-----cC-CEEEEEEcCCCc-CHHHHHHHHHHHhCCCC---
Q 038494          171 VVEALR-NDKLNIIGVHGMGGVGKTTLVKQIAKQVMEDK-----VF-DKVVMAEVTENP-DVQKIQDKLASDLDLNF---  239 (1209)
Q Consensus       171 l~~~L~-~~~~~vi~I~G~~GiGKTtLa~~~~~~~~~~~-----~f-~~~~wv~~s~~~-~~~~l~~~i~~~l~~~~---  239 (1209)
                      .++.+. =.+...+.|.|.+|+|||+++..+........     .- ..++++-+.+.. ...++.+.+...-....   
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvv  137 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIV  137 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEE
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEE
Confidence            344443 23345789999999999999998886653211     11 145666676654 34455444443211110   


Q ss_pred             ---CCCCChH------HHHHHHHHHHh-cCCeEEEEEeCCCcc
Q 038494          240 ---DLNDSKP------HRAKQLCQRLT-KEKRVLIILDNIWKK  272 (1209)
Q Consensus       240 ---~~~~~~~------~~~~~l~~~l~-~~k~~LlvlDdv~~~  272 (1209)
                         ...+...      ...-.+-+++. ++|.+|+++||+...
T Consensus       138 v~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~  180 (285)
T d2jdia3         138 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQ  180 (285)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHH
Confidence               1111111      11123444444 479999999998654

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

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: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=88.13  E-value=0.17  Score=53.53  Aligned_cols=25  Identities=32%  Similarity=0.410  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+..+|+.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4568889999999999999998764

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=87.97  E-value=0.084  Score=50.79  Aligned_cols=26  Identities=27%  Similarity=0.291  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +.-+|+|-|..|+||||+|+.+.+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999986544

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=87.72  E-value=0.81  Score=46.09  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhh
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVME  206 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~  206 (1209)
                      .+..|+|.+|+||||+|.+++.....
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            57889999999999999999877654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=87.52  E-value=0.14  Score=49.98  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +..+++|+|+.|+|||||.+.++--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            34689999999999999999876543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal 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: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.51  E-value=0.16  Score=49.50  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||.+.++--.+
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            346899999999999999998865543

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=87.51  E-value=0.14  Score=50.13  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ..+++|+|+.|.|||||++.++--.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4589999999999999999987543

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=87.03  E-value=0.18  Score=49.39  Aligned_cols=27  Identities=30%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||.+.+.--.+
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            346899999999999999998865443

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {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: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=86.97  E-value=0.14  Score=50.09  Aligned_cols=27  Identities=33%  Similarity=0.454  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||++.++--.+
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            346899999999999999999865443

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=86.63  E-value=0.42  Score=47.49  Aligned_cols=55  Identities=16%  Similarity=0.173  Sum_probs=37.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhccc--------------CCEEEEEEcCCCcCHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKV--------------FDKVVMAEVTENPDVQKIQDKLASDL  235 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~--------------f~~~~wv~~s~~~~~~~l~~~i~~~l  235 (1209)
                      ..++.|.|.+|+|||++|.+++........              ...+.|++........ ....+...+
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            479999999999999999999987653211              1246788776555433 333444443

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.60  E-value=0.19  Score=49.93  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+.|+|-|.-|+||||+++.+.+...
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            47899999999999999999988764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=86.58  E-value=0.13  Score=49.24  Aligned_cols=26  Identities=42%  Similarity=0.694  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|+|+.|+|||||.+.++.-.+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccc
Confidence            45899999999999999999965443

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=86.57  E-value=0.17  Score=50.33  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...+++|+|+.|.|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            34689999999999999999996443

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=86.55  E-value=0.17  Score=46.79  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||||...+..+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987653

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {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: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=86.36  E-value=0.18  Score=49.65  Aligned_cols=25  Identities=40%  Similarity=0.593  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ...|+|+|..|.|||||++.+..-.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            4689999999999999999997544

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=86.28  E-value=0.2  Score=49.47  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      ....++|+|+.|.|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999997433

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.25  E-value=0.52  Score=45.83  Aligned_cols=46  Identities=15%  Similarity=0.052  Sum_probs=32.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHhhccc----CCEEEEEEcCCCcCHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVMEDKV----FDKVVMAEVTENPDVQ  225 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~s~~~~~~  225 (1209)
                      ..++.|.|.+|+|||++|.+++........    +....++.........
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            469999999999999999999977643322    2345555555554443

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.19  E-value=0.18  Score=47.04  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+.++.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            36799999999999999987653

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {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: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.17  E-value=0.19  Score=46.49  Aligned_cols=21  Identities=33%  Similarity=0.623  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.15  E-value=0.19  Score=49.11  Aligned_cols=33  Identities=24%  Similarity=0.195  Sum_probs=24.9

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHHhhcccCCEEEEE
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQVMEDKVFDKVVMA  216 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  216 (1209)
                      .+++|+|+.|.|||||.+.++--.+.   -.+.+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p---~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKP---DRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC---SEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCCC---CceEEEE
Confidence            47889999999999999999765543   2344554

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.15  E-value=0.19  Score=49.84  Aligned_cols=27  Identities=19%  Similarity=0.277  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|..|.|||||++.+..-.+
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            346899999999999999999865443

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {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: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.13  E-value=0.19  Score=46.52  Aligned_cols=23  Identities=35%  Similarity=0.287  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.++|.+|+|||||+.++.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999998754

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=86.06  E-value=0.19  Score=48.83  Aligned_cols=27  Identities=26%  Similarity=0.265  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||.+.++--..
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            346899999999999999999875443

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.99  E-value=0.19  Score=46.50  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||+|+.++.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988654

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=85.87  E-value=0.26  Score=46.32  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=19.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIA  201 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~  201 (1209)
                      .+...|+|+|.+|+|||||..++.
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHh
Confidence            344568899999999999998874

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=85.82  E-value=0.18  Score=50.16  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      +..+++|+|+.|.|||||++.++-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            346899999999999999999864

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {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: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.79  E-value=0.21  Score=50.60  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||++.++-...
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            446899999999999999999986543

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=85.71  E-value=0.31  Score=45.49  Aligned_cols=34  Identities=18%  Similarity=0.346  Sum_probs=25.0

Q ss_pred             HHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          169 QDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       169 ~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+..++.+.. .-|.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            44555554444 45779999999999999988654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=85.67  E-value=0.36  Score=47.54  Aligned_cols=38  Identities=29%  Similarity=0.397  Sum_probs=30.0

Q ss_pred             ceEEEEE-cCCCChHHHHHHHHHHHHhhcccCCEEEEEEcC
Q 038494          180 LNIIGVH-GMGGVGKTTLVKQIAKQVMEDKVFDKVVMAEVT  219 (1209)
Q Consensus       180 ~~vi~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~s  219 (1209)
                      .++|+|+ +-||+||||+|..++.....+  -..++-++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~--g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDR--GRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            3689999 779999999999999888753  2357777764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=85.55  E-value=0.22  Score=47.56  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=21.8

Q ss_pred             CCceEEEEEcCCCChHHHHHHHHHH
Q 038494          178 DKLNIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       178 ~~~~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      +..+.|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            3456899999999999999999974

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.40  E-value=0.12  Score=51.54  Aligned_cols=26  Identities=23%  Similarity=0.364  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      .+.|+|-|+.|+||||+|+.+++...
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999999999877553

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.24  E-value=0.22  Score=46.18  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+.++....
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987643

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=85.16  E-value=0.23  Score=48.00  Aligned_cols=19  Identities=32%  Similarity=0.538  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~  200 (1209)
                      +|+|+|..|.||||+|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999866

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.06  E-value=0.22  Score=45.97  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |+|+|.+|+|||+|+.++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988654

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {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: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.82  E-value=0.23  Score=45.93  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||||..++.++.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999998654

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.78  E-value=0.24  Score=46.06  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+.++.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999998654

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=84.75  E-value=0.24  Score=45.99  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999998765

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.73  E-value=0.23  Score=46.22  Aligned_cols=23  Identities=39%  Similarity=0.586  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998653

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.69  E-value=0.24  Score=45.85  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+.++.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998753

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon 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: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=84.63  E-value=0.2  Score=49.03  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +..+++|+|+.|.|||||.+.+.--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34689999999999999999987543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.42  E-value=0.21  Score=46.45  Aligned_cols=22  Identities=45%  Similarity=0.792  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |+|+|.+|+|||||...+.++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999987643

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.32  E-value=0.25  Score=45.74  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999998754

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.09  E-value=0.25  Score=46.04  Aligned_cols=23  Identities=39%  Similarity=0.520  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999987643

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=84.08  E-value=0.32  Score=47.37  Aligned_cols=27  Identities=22%  Similarity=0.159  Sum_probs=24.1

Q ss_pred             eEEEEEcCC-CChHHHHHHHHHHHHhhc
Q 038494          181 NIIGVHGMG-GVGKTTLVKQIAKQVMED  207 (1209)
Q Consensus       181 ~vi~I~G~~-GiGKTtLa~~~~~~~~~~  207 (1209)
                      +.+.|.|-| |+||||++..++.....+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            568899998 999999999999998765

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {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: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.99  E-value=0.26  Score=45.55  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|+++|.+|+|||||+..+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.94  E-value=0.27  Score=45.45  Aligned_cols=23  Identities=39%  Similarity=0.614  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+++|.+|+|||+|..++.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999988664

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=83.93  E-value=0.28  Score=46.63  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHHh
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      -|.++|.+|+|||+|..++..+.-
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~~   27 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIHE   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCCC
Confidence            367999999999999998866543

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=83.93  E-value=0.25  Score=47.53  Aligned_cols=20  Identities=40%  Similarity=0.599  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~  200 (1209)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999876

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {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: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.87  E-value=0.27  Score=45.88  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||||...+.++.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            37899999999999999987643

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.87  E-value=0.23  Score=46.03  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|+++|.+|+|||+|++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3789999999999999988643

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.75  E-value=0.29  Score=47.21  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999764

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=83.73  E-value=0.28  Score=45.52  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      .|+|+|.+|+|||||..++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999999864

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=83.73  E-value=0.25  Score=45.55  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      -|.|+|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            477999999999999998754

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.67  E-value=0.27  Score=45.71  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||+|...+..+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999988653

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.57  E-value=0.3  Score=45.14  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..-|+|+|.+|+|||+|...+.+.
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            346789999999999999998754

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal 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: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.48  E-value=0.26  Score=48.04  Aligned_cols=25  Identities=32%  Similarity=0.558  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ..+|..|.|+-|.|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999888653

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.32  E-value=0.28  Score=45.68  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+++|.+|+|||||+..+..+.
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~   29 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKK   29 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987643

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.25  E-value=0.3  Score=45.59  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|+|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {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: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.16  E-value=0.3  Score=45.25  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |+|+|..|+|||+|..++.+..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.01  E-value=0.3  Score=45.70  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999887653

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.78  E-value=0.3  Score=46.13  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3779999999999999988753

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.73  E-value=0.32  Score=45.77  Aligned_cols=22  Identities=36%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|.|+|.+|+|||+|..++.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.68  E-value=0.31  Score=44.94  Aligned_cols=23  Identities=39%  Similarity=0.580  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+++|.+|+|||+|..++.++.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999998753

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.59  E-value=0.33  Score=44.99  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999988764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {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: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.09  E-value=0.35  Score=44.19  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|+++|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999987653

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.07  E-value=0.37  Score=46.38  Aligned_cols=24  Identities=21%  Similarity=0.237  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      +.|+|+|.+|+|||||..++....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987643

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=81.98  E-value=0.31  Score=45.49  Aligned_cols=22  Identities=45%  Similarity=0.557  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCChHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      --|+++|.+|+|||||..++..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998854

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=81.96  E-value=0.42  Score=44.39  Aligned_cols=31  Identities=23%  Similarity=0.274  Sum_probs=22.5

Q ss_pred             HHHhCCCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          173 EALRNDKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       173 ~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      +.+...+.--|.++|.+|+|||||..++.+.
T Consensus         5 ~~~~~~k~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_           5 SKIFGNKEMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             HHHHTTCCEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             hhhhCCCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3344333334679999999999999998654

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {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: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=81.85  E-value=0.38  Score=44.92  Aligned_cols=24  Identities=25%  Similarity=0.439  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999998754

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=81.83  E-value=0.31  Score=47.89  Aligned_cols=26  Identities=38%  Similarity=0.456  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|+|+.|.|||||.+.+.--.+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            46899999999999999999865443

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=81.76  E-value=0.58  Score=44.99  Aligned_cols=33  Identities=30%  Similarity=0.536  Sum_probs=24.7

Q ss_pred             HHHHHHHHhCCCceEEEEEcCCCChHHHHHHHHHHH
Q 038494          168 FQDVVEALRNDKLNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       168 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ++.|.++|.   .+..+++|.+|+|||||...+..+
T Consensus        86 ~~~L~~~l~---~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhc---CCeEEEECCCCCCHHHHHHhhcch
Confidence            355666663   247789999999999999887543

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.72  E-value=0.36  Score=45.39  Aligned_cols=21  Identities=38%  Similarity=0.610  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {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: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.65  E-value=0.35  Score=45.98  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37899999999999999988654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.63  E-value=0.35  Score=45.55  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||+|..++.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            37899999999999999987653

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=81.62  E-value=0.42  Score=47.32  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Q 038494          181 NIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       181 ~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      .+|+|+|..|+||||+|+.+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998664

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=81.60  E-value=0.36  Score=47.36  Aligned_cols=27  Identities=33%  Similarity=0.514  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      +..+++|+|+.|.|||||.+.++--..
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            346899999999999999998865543

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=81.46  E-value=0.39  Score=44.41  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999987643

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {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: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.40  E-value=0.37  Score=45.11  Aligned_cols=23  Identities=39%  Similarity=0.411  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.++|..|+|||+|+..+.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999987653

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=81.24  E-value=0.4  Score=44.07  Aligned_cols=23  Identities=35%  Similarity=0.374  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|+++|.+|+|||||..++....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36789999999999999886543

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.23  E-value=0.39  Score=44.66  Aligned_cols=21  Identities=33%  Similarity=0.629  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {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: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.13  E-value=0.4  Score=44.35  Aligned_cols=23  Identities=39%  Similarity=0.585  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      -|.++|.+|+|||+|+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999998754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.11  E-value=0.38  Score=44.68  Aligned_cols=21  Identities=38%  Similarity=0.472  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      -|.++|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998864

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=81.11  E-value=0.32  Score=48.15  Aligned_cols=24  Identities=38%  Similarity=0.591  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHHHH
Q 038494          179 KLNIIGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       179 ~~~vi~I~G~~GiGKTtLa~~~~~  202 (1209)
                      +...++|+|..|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            346899999999999999988764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.10  E-value=0.39  Score=45.71  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      -|.++|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998555

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=80.75  E-value=0.35  Score=48.01  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHHHh
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQVM  205 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~~~  205 (1209)
                      ..+++|+|+.|.|||||++.++--.+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            45899999999999999999975543

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal 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: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.63  E-value=0.4  Score=44.74  Aligned_cols=24  Identities=33%  Similarity=0.524  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHHHHH
Q 038494          180 LNIIGVHGMGGVGKTTLVKQIAKQ  203 (1209)
Q Consensus       180 ~~vi~I~G~~GiGKTtLa~~~~~~  203 (1209)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999853

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.58  E-value=0.43  Score=44.54  Aligned_cols=22  Identities=32%  Similarity=0.554  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |.++|.+|+|||||..++.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987644

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.47  E-value=0.38  Score=45.90  Aligned_cols=19  Identities=42%  Similarity=0.599  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 038494          182 IIGVHGMGGVGKTTLVKQI  200 (1209)
Q Consensus       182 vi~I~G~~GiGKTtLa~~~  200 (1209)
                      -|.|+|.+|+|||||..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999988

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.12  E-value=0.43  Score=45.20  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAKQV  204 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~~~  204 (1209)
                      |+++|.+|+|||+|+.++.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887643

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {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: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=80.02  E-value=0.33  Score=45.49  Aligned_cols=20  Identities=25%  Similarity=0.644  Sum_probs=18.1

Q ss_pred             EEEEcCCCChHHHHHHHHHH
Q 038494          183 IGVHGMGGVGKTTLVKQIAK  202 (1209)
Q Consensus       183 i~I~G~~GiGKTtLa~~~~~  202 (1209)
                      |+|+|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999988853