Citrus Sinensis ID: 038405

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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---
Protein Sequence
MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccEEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHcccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccccHHHHHcccccccccHHHHHHHHHccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccEEcccccEEEEcccHHHHHHHHHccccEEEEEcccccccccccccEEEEEEEEcccccccccccccccccEEEEcccccccccHHHHcccccccEEEcccccccccccHHHcccccccEEcccccccccccHHHHccccccEEccccccccccccHHHHHccccccEEEEccccccccccccccccccccccccccccEEEEEEEEcccccHHcccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccEEEEEEccccccccccccccccccEEEEEccccccEEcccccccccccccccccccccccccccccccEEcccccccccccEEEEEccccccccccccccccccEEEEEccHHcccccccccHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEcccccccccccccccccccccHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccccHccccccEEEEEEEcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHHccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHHcccccccccHHHEEcHcccccHHHHHHEEEEEcccccccEcHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHHHHcccEEEEEEccccccccccccccEEEEEEccccccccccccccccccEEEEcccccccccHHHHHcccccEEEEEccccccccccccccccccccEEEcccccccccccHHcccccccEEEEccccccccccccHcccccccEEEEEcccccccccccccccccHHHHHHHcccccHcccccccccccHHEEEcccccccHHHHcccccccccccccccccccccEEEEEccccccccccccccccccccEEEEEcccccccccccccccccccEEEEcccccHcEccHHcccccccccccccccccEEEEcccccHHHccccccccccccEEEEcccccHcccccccccHHHHHHHHHccHHHHHHcccccHHHHHccccccccc
Coil and Loop (DISEMBL)
MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKkclggcctrncyasykiGKTVTEEISKVTLLrlegqdfesvyftyklprppvdgmatektvgadskldevwgciedqseqtiglygmggvgkitllkkpnnkfldvnhcFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLdlsktgvslsdcqngskivfttrseevcveclspeaaLDLFRYKvgedvfnshpeiptlAQAVVGECKGLPLALITIARAMssrrspreWQYVIDELqrnpsrfagmgnlvFPILrfsydnltddtlKTCFLYCslfpeennirkdelidlwigegflsdfRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQrssdctnksadsWREDFRLSLWgssieylpetpcphlqTLLVRFTVleifphrffesmgalKVLDlsynldltqlPAEMGALINLRclnlsntsieelPSEIMYLKNLKILLLDgmrhfhliPARVFSSLLSLKVFSLFSTELielhrmppnqttILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVEcslervdptfngwtnfhnlhhlsirvcpvirdltwireapnlqflSLVNCQALSEIIEsagssevaesHNYFAYLMVIDldslpslkrichgtmpfpslqnvsvtncpnlrelpfnfdsaKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Flexible Loop (DISEMBL)
MDCVSPILDIFTRLWDCSAAKSSYIRHLEdnlkslsekksqiedLNEDIKRRVEteeqqqqrkrkkvvegwlNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYklprppvdgmATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAvskegnlekiQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLsktgvslsdcqngskIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIAramssrrsprEWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNeskilvqrssdctnksadswrEDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Low Complexity Region (SEG)
MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIkrrveteeqqqqrkrkkvveGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARvfssllslkvfslfsTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Disordered region (IsUnstruct)
**CVSPILDIFTRLWDCSAAKSSYIRHL**************************************VVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKIT*********LDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMS****PREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAA*****
Disordered Region (DISOPRED)
MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRV************KVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLR****************************VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD****************EILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQR*********NLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRS********DSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE*HNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAK**LVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Disordered Region (DISEMBL)
MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRR***************VEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
Disordered Region (DISPRO)
*DCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYK****PVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDCVSPILDIFTRLWDCSAAKSSYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFREL
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	863	2.2.26 [Sep-21-2011]
Q8RXS5	888	Probable disease resistan	yes	no	0.944	0.917	0.386	1e-147
O64973	889	Disease resistance protei	no	no	0.950	0.922	0.357	1e-129
O64789	925	Probable disease resistan	no	no	0.953	0.889	0.359	1e-128
O82484	892	Putative disease resistan	no	no	0.958	0.927	0.350	1e-127
Q8L3R3	885	Disease resistance protei	no	no	0.954	0.931	0.353	1e-127
P60838	894	Probable disease resistan	no	no	0.950	0.917	0.356	1e-125
O22727	967	Probable disease resistan	no	no	0.960	0.857	0.351	1e-122
Q9C8T9	898	Putative disease resistan	no	no	0.951	0.914	0.355	1e-120
Q9FG91	848	Probable disease resistan	no	no	0.932	0.949	0.353	1e-117
P60839	884	Probable disease resistan	no	no	0.950	0.927	0.340	1e-116

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

 Score =  521 bits (1343), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 337/873 (38%), Positives = 482/873 (55%), Gaps = 58/873 (6%)

Query: 17  CSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVE 76
           C      YI  LE+NL +L     QIE   ED+ R++ +EE++   +R  VV+GW++ VE
Sbjct: 21  CLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGL-QRLSVVQGWVSKVE 79

Query: 77  SEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESV 136
           + +  V+ +++    ++++ CL G C++N  +SY+ GK V + I +V +LR +G DF  V
Sbjct: 80  AIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQG-DFAVV 138

Query: 137 YFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNN 196
                  R  V+   T   V  D  L+  W  + +     +GL+GMGGVGK TLL   NN
Sbjct: 139 AERVDAAR--VEERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINN 196

Query: 197 KFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRK 256
           +F  V   FD+VI++ VSKE  +++IQ+ I +KL   +  W  K E  +A  I   L+ K
Sbjct: 197 RFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHK 256

Query: 257 KFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAA 306
           +FVLLLDD+W ++DL++ GV     +NG KIVFTTR +E+C          V CL+P+ A
Sbjct: 257 RFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDA 316

Query: 307 LDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDEL 366
            DLF  KVGE    SHPEIPT+A+ V  +C+GLPLAL  I   M+ +R+ +EW+  ID L
Sbjct: 317 WDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVL 376

Query: 367 QRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGF 426
             + + F+GM + + PIL++SYDNL  + LK CF YC+LFPE++NI K++L+D WIGEGF
Sbjct: 377 TSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGF 436

Query: 427 LSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESK---- 482
           +   R+   A NQG  IIG L  +CLL   E +++ VKMHDVVR+MALW+AS+  K    
Sbjct: 437 ID--RNKGKAENQGYEIIGILVRSCLL--MEENQETVKMHDVVREMALWIASDFGKQKEN 492

Query: 483 ILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRF 540
            +VQ      N    + W+   R+SL  ++IE + + P  P L TLL+R   L      F
Sbjct: 493 FIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISSSF 552

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD 600
           F  M  L VLDLS N DL  LP E+   ++L+ L+LS T I   P+ ++ L+ L  L L+
Sbjct: 553 FRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLE 612

Query: 601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL 660
             R    I     S L SLKV  LF +   E           +     L   +  ++ITL
Sbjct: 613 YTRMVESICG--ISGLTSLKVLRLFVSGFPE--------DPCVLNELQLLENLQTLTITL 662

Query: 661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHS--------IDLRNMMHLETLNIVECSLE 712
           G AS L +   + +L SC + L I  NL+  S        +D    +H    +I E  ++
Sbjct: 663 GLASILEQFLSNQRLASCTRALRI-ENLNPQSSVISFVATMDSLQELHFADSDIWEIKVK 721

Query: 713 RVD-------PTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEII 765
           R +       PT    T F NL  +S+  C  +RDLTW+  APNL  L +++   L E+I
Sbjct: 722 RNETVLPLHIPTTT--TFFPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVI 779

Query: 766 ESAGSSEVAESHNY--FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPF 823
               + E AE  N   F  L  + L+++  LK I  G +PFP LQ + V  C  LR+LP 
Sbjct: 780 ----NKEKAEQQNLIPFQELKELRLENVQMLKHIHRGPLPFPCLQKILVNGCSELRKLPL 835

Query: 824 NFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVF 856
           NF S     + I    +W E L+WEDEATK  F
Sbjct: 836 NFTSVPRGDLVIEAHKKWIEILEWEDEATKARF 868

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

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

 Score =  462 bits (1189), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 315/882 (35%), Positives = 465/882 (52%), Gaps = 62/882 (7%)

Query: 20  AKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEI 79
            + SYI +L  NL SL +    ++    D+ RR+ETEE   +++R   V+ WL +V    
Sbjct: 24  VRGSYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQ 83

Query: 80  KEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFT 139
            + + +L+    E+++ CL G C+++   SY+ GK V   + +V    L  Q F  V  +
Sbjct: 84  NQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVE--SLSSQGFFDV-VS 140

Query: 140 YKLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF 198
              P   VD +  + T VG +  L++ W  + +     +GLYGMGGVGK TLL K NNKF
Sbjct: 141 EATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKF 200

Query: 199 LDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKF 258
             ++  FD+VI+V VS+   + KIQ  I +K+ +    W+ K +   AV+I   LRR+KF
Sbjct: 201 SKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKF 260

Query: 259 VLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAALD 308
           VLLLDD+WE+++L   GV      NG K+ FTTRS +VC          V CL PE + D
Sbjct: 261 VLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWD 320

Query: 309 LFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQR 368
           LF+ KVG++   SHP+IP LA+ V  +C+GLPLAL  I  AM+ +R+  EW + ID L  
Sbjct: 321 LFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTS 380

Query: 369 NPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLS 428
           +   F+GM + +  +L++SYDNL  + +K+CFLYCSLFPE+  I K+ L+D WI EGF++
Sbjct: 381 SAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFIN 440

Query: 429 DFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILVQRS 488
           +        NQG  IIG+L  ACLL   E ++  VKMHDVVR+MALW++S+    L ++ 
Sbjct: 441 EKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSD----LGKQK 496

Query: 489 SDCTNKSA---------DSWREDFRLSLWGSSIEYLPET-PCPHLQTLLVRFTVLEIFPH 538
             C  ++            W    ++SL  + IE + ++  C  L TL ++   +     
Sbjct: 497 EKCIVRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISA 556

Query: 539 RFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILL 598
            FF  M  L VLDLS N  L +LP E+  L +LR  NLS T I +LP  +  LK L  L 
Sbjct: 557 EFFRCMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLN 616

Query: 599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI 658
           L+ M     I     S+L +L+   L  + L+ L      +  +L+ LE        I++
Sbjct: 617 LEHMSSLGSILG--ISNLWNLRTLGLRDSRLL-LDMSLVKELQLLEHLEV-------ITL 666

Query: 659 TLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI---DLRNMMHLETLNIVECSLE--R 713
            + S+     +  S +L  CIK +   + L   S+    L  M +L  L I  C +   +
Sbjct: 667 DISSSLVAEPLLCSQRLVECIKEVDFKY-LKEESVRVLTLPTMGNLRKLGIKRCGMREIK 725

Query: 714 VDPTFNGWTN--------FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEII 765
           ++ T +  +         F NL  + I  C  ++DLTW+  APNL FL +      S+ +
Sbjct: 726 IERTTSSSSRNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEV----GFSKEV 781

Query: 766 ESAGSSEVAESHNY----FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
           E   S E AE H+     F  L  + L  L  LKRI    + FP L+ + V  C  LR+L
Sbjct: 782 EDIISEEKAEEHSATIVPFRKLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKL 841

Query: 822 PFNFDS--AKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
           P +  S  A   LV   G  EW E+++WED+AT+  F    R
Sbjct: 842 PLDSKSGIAGEELVIYYGEREWIERVEWEDQATQLRFLPSSR 883

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  458 bits (1179), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 318/885 (35%), Positives = 469/885 (52%), Gaps = 62/885 (7%)

Query: 11  FTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEG 70
             R++DC   KS YIR LE NL++L  +   +     +++ +V  EE + Q +R + V+ 
Sbjct: 16  MNRIFDCLIGKS-YIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQ-QRLEAVQV 73

Query: 71  WLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEG 130
           WL+ V S   E   +L     E++K CL G CT+   +SYK GK V   + +V +L+ EG
Sbjct: 74  WLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEG 133

Query: 131 QDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITL 190
            +F+ V  +   PR  V+   T+ T+G +  L++ W  + +     +GL+GMGGVGK TL
Sbjct: 134 -NFDEV--SQPPPRSEVEERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTL 190

Query: 191 LKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL 250
            KK +NKF ++   FD+VI++ VS+   L K+QE I +KL + D +W  K E D+A +I 
Sbjct: 191 FKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIH 250

Query: 251 ISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VEC 300
             L+ K+FVL+LDD+WE++DL   G+      N  K+ FTTRS EVC          V C
Sbjct: 251 RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNC 310

Query: 301 LSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQ 360
           L PE A +LF+ KVG++  +S P I  LA+ V  +C+GLPLAL  I   M+S+   +EW+
Sbjct: 311 LEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWE 370

Query: 361 YVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDL 420
           Y ID L R+ + F+GM N + PIL++SYD+L D+ +K+CFLYC+LFPE+  I  + LID 
Sbjct: 371 YAIDVLTRSAAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLIDK 430

Query: 421 WIGEGFLSDFRSITTARNQGEYIIGSLKLACLLE--SGEYSEDFVK-------MHDVVRD 471
            I EGF+ + + I  ARN+G  ++G+L  A LL     E +    K       MHDVVR+
Sbjct: 431 LICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTELANLLTKVSIYHCVMHDVVRE 490

Query: 472 MALWLASNESK----ILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLP-ETPCPHLQT 525
           MALW+AS+  K     +VQ S+          W    R+SL  + IE +  E+ C  L T
Sbjct: 491 MALWIASDFGKQKENFVVQASAGLHEIPEVKDWGAVRRMSLMRNEIEEITCESKCSELTT 550

Query: 526 LLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELP 585
           L ++   L+     F   M  L VLDLS N D  +LP ++  L++L+ L+LS T IE+LP
Sbjct: 551 LFLQSNQLKNLSGEFIRYMQKLVVLDLSDNRDFNELPEQISGLVSLQYLDLSFTRIEQLP 610

Query: 586 SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDE 645
             +  LK L  L L        I     S +  L    + S    ++H       ++L E
Sbjct: 611 VGLKELKKLTFLDLAYTARLCSI-----SGISRLLSLRVLSLLGSKVH----GDASVLKE 661

Query: 646 LECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLN 705
           L+ L N + +++ITL +      I+   +L   I  L I   L     DL  +  +E L+
Sbjct: 662 LQQLEN-LQDLAITLSAEL----ISLDQRLAKVISILGIEGFL-QKPFDLSFLASMENLS 715

Query: 706 I----------VECSLERVDPTF----NGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQ 751
                      ++C     D ++         F NL  L I  C  ++DLTWI  APNL 
Sbjct: 716 SLWVKNSYFSEIKCRESETDSSYLHINPKIPCFTNLSRLDIVKCHSMKDLTWILFAPNLV 775

Query: 752 FLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVS 811
            L + + + + EII    ++ +  S   F  L  + L  LP L+ I    +PFP L N+ 
Sbjct: 776 VLFIEDSREVGEIINKEKATNLT-SITPFLKLERLILCYLPKLESIYWSPLPFPLLLNID 834

Query: 812 VTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVF 856
           V  CP LR+LP N  SA    V       +  +L+WEDE TK+ F
Sbjct: 835 VEECPKLRKLPLNATSAPK--VEEFRILMYPPELEWEDEDTKNRF 877

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  456 bits (1172), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 311/888 (35%), Positives = 459/888 (51%), Gaps = 61/888 (6%)

Query: 10  IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVE 69
           + TR + C  +  +YI  L+DN+ +L +    +    +D+ RRV+ EE +   +R + V+
Sbjct: 14  VLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKG-LERLQQVQ 72

Query: 70  GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
            WL  VE    +   +L     EI++ C    C+ N  +SY  G+ V   I +V  L   
Sbjct: 73  VWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSN 132

Query: 130 GQDFESVYFTYKLPRPPVDGMATEKTV-GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKI 188
           G  FE V      P P ++    + T+ G ++     W  + D    T+GLYGMGGVGK 
Sbjct: 133 G-FFEIV----AAPAPKLEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKT 187

Query: 189 TLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVE 248
           TLL + +N   D  +  D+VI+V VS +  + KIQE I +KL      WN K E  +AV+
Sbjct: 188 TLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVD 247

Query: 249 ILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------V 298
           IL  L +K+FVLLLDD+W+++DL+K G+     +N  K+VFTTRS +VC          V
Sbjct: 248 ILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEV 307

Query: 299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPRE 358
           +CLS   A +LF+ KVG+    SHP+I  LA+ V G+C+GLPLAL  I   M+ +R+ +E
Sbjct: 308 QCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQE 367

Query: 359 WQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELI 418
           W + +D L    + F+GM + +  IL++SYDNL D  +++CF YC+L+PE+ +I+K  LI
Sbjct: 368 WHHAVDVLTSYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLI 427

Query: 419 DLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALW--- 475
           D WI EGF+        A NQG  I+G+L  ACLL     ++  VKMHDVVR+MALW   
Sbjct: 428 DYWICEGFIDGNIGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLS 487

Query: 476 -LASNESKILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFT- 531
            L  N+ + +VQ  S        + W    RLSL  + IE +  +P CP L TL ++   
Sbjct: 488 DLGKNKERCIVQAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENK 547

Query: 532 VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYL 591
            L      FF  M  L VLDLS N  L  LP ++  L+ LR L+LS+T+IE LP+ +  L
Sbjct: 548 SLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDL 607

Query: 592 KNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELEC--- 648
           K L  L L+ MR    I     S L SL+   L             N   +LD +     
Sbjct: 608 KTLIHLNLECMRRLGSIAG--ISKLSSLRTLGL------------RNSNIMLDVMSVKEL 653

Query: 649 -LGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID----LRNMMHLET 703
            L   +  ++I + S   L ++  +  L +C++ ++I   +     D    L  M  L +
Sbjct: 654 HLLEHLEILTIDIVSTMVLEQMIDAGTLMNCMQEVSIRCLIYDQEQDTKLRLPTMDSLRS 713

Query: 704 LNIVECSLERVDPTFNGWTN------FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN 757
           L +  C +  ++     W        F NL  + I VC  ++DLTW+  APN+ +L +  
Sbjct: 714 LTMWNCEISEIEIERLTWNTNPTSPCFFNLSQVIIHVCSSLKDLTWLLFAPNITYLMIEQ 773

Query: 758 CQALSEIIESAGSSEVAESHNY-------FAYLMVIDLDSLPSLKRICHGTMPFPSLQNV 810
            + L E+I  A ++ V E           F  L ++ L SLP LK I   ++ FP L  +
Sbjct: 774 LEQLQELISHAKATGVTEEEQQQLHKIIPFQKLQILHLSSLPELKSIYWISLSFPCLSGI 833

Query: 811 SVTNCPNLRELPFNFDSAK--NSLVSIRGSAEWWEQLQWEDEATKHVF 856
            V  CP LR+LP +  +       V      EW E ++W+DEATK  F
Sbjct: 834 YVERCPKLRKLPLDSKTGTVGKKFVLQYKETEWIESVEWKDEATKLHF 881

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  456 bits (1172), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 313/886 (35%), Positives = 471/886 (53%), Gaps = 62/886 (6%)

Query: 15  WDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNA 74
           W C +   SYI++L +NL SL +    +    +D++ R+  EE    R+R   V+ WL  
Sbjct: 21  WLCVSG--SYIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTR 78

Query: 75  VESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFE 134
           +++   + + +L     EI++ CL G C++N   SY  GK V      V L  +EG   +
Sbjct: 79  IQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVI-----VLLREVEGLSSQ 133

Query: 135 SVY--FTYKLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLL 191
            V+   T   P   V+ +  + T VG DS LD+VW C+ +     +GLYGMGGVGK TLL
Sbjct: 134 GVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLL 193

Query: 192 KKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI 251
            + NNKF  +   FD+VI+V VSK   + KIQ+ I +KL +    W+ K +  RA++I  
Sbjct: 194 TQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHN 253

Query: 252 SLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECL 301
            LRRKKFVLLLDD+WE+++L   GV     +NG K+ FTT S+EVC          + CL
Sbjct: 254 VLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCL 313

Query: 302 SPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQY 361
               A DL + KVGE+   SHP+IP LA+ V  +C GLPLAL  I   MS +R+ +EW++
Sbjct: 314 DTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRH 373

Query: 362 VIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLW 421
             + L  + + F+GM + + PIL++SYD+L  +  K+CFLYCSLFPE+  IRK+ LI+ W
Sbjct: 374 ATEVLT-SATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYW 432

Query: 422 IGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALW----LA 477
           I EGF+ + +    A NQG  I+G+L  + LL  G   +D V MHD+VR+MALW    L 
Sbjct: 433 ICEGFIKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLG 492

Query: 478 SNESKILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVR--FTVL 533
            ++ + +VQ           ++WR   R+SL  ++ E +  +P C  L TL ++  + ++
Sbjct: 493 KHKERCIVQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLV 552

Query: 534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
           +I    FF  M +L VLDLS N  L++LP E+  L++L+ L+LS T IE LP  +  L+ 
Sbjct: 553 DI-SMEFFRCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRK 611

Query: 594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDE--LECLGN 651
           L  L L+  R    I     S L SL+   L  ++            T LD   ++ L  
Sbjct: 612 LVHLKLERTRRLESISG--ISYLSSLRTLRLRDSK------------TTLDTGLMKELQL 657

Query: 652 QIYEISITLGSASALFKINFSW-KLCSCIKRLTIMHNLDSHS-----IDLRNMMHLETLN 705
             +   IT   +S L    F + ++  CI+ + I  + +        + L  + +L  ++
Sbjct: 658 LEHLELITTDISSGLVGELFCYPRVGRCIQHIYIRDHWERPEESVGVLVLPAIHNLCYIS 717

Query: 706 IVECSLERVDPTFNGWT------NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ 759
           I  C +  +      W       NF NL ++ I  C  ++DLTW+  APNL  L +  C+
Sbjct: 718 IWNCWMWEIMIEKTPWKKNLTNPNFSNLSNVRIEGCDGLKDLTWLLFAPNLINLRVWGCK 777

Query: 760 ALSEIIESAGSSEVAESHNY-FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSV-TNCPN 817
            L +II    ++ V E     F  L  ++L  L  LK I    +PF  L+ + +  NCP 
Sbjct: 778 HLEDIISKEKAASVLEKEILPFQKLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPK 837

Query: 818 LRELPFNFDSAKN--SLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
           LR+LP +  S       V      +W E+++WEDEAT++ F    R
Sbjct: 838 LRKLPLDSKSVVKVEEFVIKYKEKKWIERVEWEDEATQYRFLPTCR 883

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  451 bits (1161), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 312/875 (35%), Positives = 479/875 (54%), Gaps = 55/875 (6%)

Query: 23  SYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEV 82
            YI  L  N+ ++ +    ++   +D+KRRV+ EE  ++R+R   V+GWL  V +   + 
Sbjct: 27  GYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKF 86

Query: 83  DGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKL 142
           + +L     E+++ CL G C++N   SY  GK V   + ++  L  +G DF++V  T   
Sbjct: 87  NELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQG-DFDTV--TLAT 143

Query: 143 PRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV 201
           P   ++ M  + T VG ++ L+ VW  + +  ++ +GLYGMGGVGK TLL + NNKF + 
Sbjct: 144 PIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEK 203

Query: 202 NHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLL 261
              F +VI+V VSK  ++ +IQ  I K+LD+    W+   E  RA++I   L ++KFVLL
Sbjct: 204 CSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLL 263

Query: 262 LDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAALDLFR 311
           LDD+WE+++L   GV     QNG K+VFTTRS +VC          V CL P  A +LF+
Sbjct: 264 LDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQ 323

Query: 312 YKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPS 371
            KVGE+    HP+IP LA+ V G+C GLPLAL  I   M+ +R  +EW+  ID L    +
Sbjct: 324 MKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAA 383

Query: 372 RFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFR 431
            F GM   + PIL++SYDNL  + +K CFLYCSLFPE+  + K+ LID WI EGF+ +  
Sbjct: 384 EFPGMEQ-ILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENE 442

Query: 432 SITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASN----ESKILVQR 487
           S   A +QG  IIG L  ACLL     +++ VKMHDVVR+MALW+AS+    + + +VQ 
Sbjct: 443 SRERALSQGYEIIGILVRACLLLEEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQV 502

Query: 488 SSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRF--TVLEIFPHRFFES 543
                      +W    R+SL  + IE L  +P C  L TL ++   ++L I    FF  
Sbjct: 503 GVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLLHI-SDEFFRC 561

Query: 544 MGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR 603
           +  L VLDLS N  L +LP ++  L++LR L+LS T I+ LP  +  LK L+ L LD M+
Sbjct: 562 IPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLDYMK 621

Query: 604 HFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSA 663
                  R+ S      + SL   +L++  +M  + + + +       ++  ISI   S+
Sbjct: 622 -------RLKSISGISNISSLRKLQLLQ-SKMSLDMSLVEELQLLEHLEVLNISIK--SS 671

Query: 664 SALFKINFSWKLCSCIKRLTI--MHNLDSHSIDLRNMMHLETLNIVECSL-----ERVDP 716
             + K+  + +L  C++ L +  +    S  + L +M +L  + I +C +     ER   
Sbjct: 672 LVVEKLLNAPRLVKCLQILVLRGVQEESSGVLTLPDMDNLNKVIIRKCGMCEIKIERKTL 731

Query: 717 TFNG----WTNF-HNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSS 771
           + +      T F HNL  + I  C  ++DLTW+  APNL  L +++    SE++E   + 
Sbjct: 732 SLSSNRSPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLD----SELVEGIINQ 787

Query: 772 EVAESHNY---FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSA 828
           E A + +    F  L  + L +L  L+ I    + FP L+ + +T CP LR+LP + + A
Sbjct: 788 EKAMTMSGIIPFQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSEIA 847

Query: 829 --KNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
                LV      EW E+++W++EAT+  F   F+
Sbjct: 848 IRDEELVIKYQEEEWLERVEWDNEATRLRFLPFFK 882

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  441 bits (1134), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 314/894 (35%), Positives = 466/894 (52%), Gaps = 65/894 (7%)

Query: 10  IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVE 69
           +  R+  C   K  YIR+LE NL++L  +   +     +++ +V  EE + Q +R + V+
Sbjct: 14  MLDRIIRCLCGKG-YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQ-QRLEAVQ 71

Query: 70  GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
            WL+ V S   E   +L     E++K CL G C++   +SYK GK V   + +VT L+ E
Sbjct: 72  VWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSE 131

Query: 130 GQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKIT 189
           G +F+ V  +   PR  V+   T+ T+G +  L + W  + +     +GL+GMGGVGK T
Sbjct: 132 G-NFDEV--SQPPPRSEVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTT 188

Query: 190 LLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEI 249
           L KK +NKF +    FD+VI++ VS+   L K+QE I +KL + D +W  K E D+A +I
Sbjct: 189 LFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI 248

Query: 250 LISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VE 299
              L+ K+FVL+LDD+WE++DL   G+      N  K+ FTTR ++VC          V+
Sbjct: 249 HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVK 308

Query: 300 CLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREW 359
           CL PE A +LF+ KVG++   S P I  LA+ V  +C+GLPLAL  I   M+S+   +EW
Sbjct: 309 CLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEW 368

Query: 360 QYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELID 419
           ++ ID L R+ + F+ M N + PIL++SYD+L D+ +K+CFLYC+LFPE++ I    LI+
Sbjct: 369 EHAIDVLTRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLIN 428

Query: 420 LWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGE-YSEDFVKMHDVVRDMALWLAS 478
            WI EGF+ + + I  ARN+G  ++G+L  A LL +   + +  V MHDVVR+MALW+AS
Sbjct: 429 KWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIAS 488

Query: 479 N-----ESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLP-ETPCPHLQTLLVRFTV 532
           +     E+ ++  R           W    R+SL  + IE +  E+ C  L TL ++   
Sbjct: 489 DFGKQKENYVVRARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQ 548

Query: 533 LEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLK 592
           L+     F   M  L VLDLS+N D  +LP ++  L++L+ L+LS T IE+LP  +  LK
Sbjct: 549 LKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELK 608

Query: 593 NLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ 652
            L  L L        I     S +  L      S     +H       ++L EL+ L N 
Sbjct: 609 KLIFLNLCFTERLCSI-----SGISRLLSLRWLSLRESNVH----GDASVLKELQQLEN- 658

Query: 653 IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETL-------- 704
           + ++ IT  +      I+   +L   I  L I   L     DL  +  +E L        
Sbjct: 659 LQDLRITESAEL----ISLDQRLAKLISVLRIEGFLQK-PFDLSFLASMENLYGLLVENS 713

Query: 705 -----NI------VECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFL 753
                NI       E S   ++P    +T   NL  L I  C  ++DLTWI  APNL  L
Sbjct: 714 YFSEINIKCRESETESSYLHINPKIPCFT---NLTGLIIMKCHSMKDLTWILFAPNLVNL 770

Query: 754 SLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT 813
            + + + + EII    +  +      F  L  + L  LP L+ I    +PFP L N+ V 
Sbjct: 771 DIRDSREVGEIINKEKAINLTSIITPFQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVK 830

Query: 814 NCPNLRELPFNFDSAKNSLV---SIR-GSAEWWEQLQWEDEATKHVFAAKFREL 863
            CP LR+LP N  S    LV    IR    E   +L+WEDE TK+ F    + L
Sbjct: 831 YCPKLRKLPLNATSV--PLVEEFEIRMDPPEQENELEWEDEDTKNRFLPSIKPL 882

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 =  432 bits (1110), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 308/867 (35%), Positives = 471/867 (54%), Gaps = 46/867 (5%)

Query: 21  KSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIK 80
           K SY  +LE NL +L     +++   +D+ R+++ EE +  +   ++ + WLN VE+   
Sbjct: 23  KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEI-KVWLNRVETIES 81

Query: 81  EVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTY 140
            V+ +L     E+++ CL G C+++   SY+ GK+V  ++ +V   +LE + FE +  + 
Sbjct: 82  RVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVE--KLERRVFEVI--SD 137

Query: 141 KLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFL 199
           +     V+    + T VG ++ LD  W  + +     +GLYGMGGVGK TLL + NNKF 
Sbjct: 138 QASTSEVEEQQLQPTIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFS 197

Query: 200 DVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFV 259
                FD VI+V VSKE N+E I + I +K+ IS   W+ K +Y + V +   LR+ +FV
Sbjct: 198 KYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFV 257

Query: 260 LLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAALDL 309
           L LDD+WE+++L + GV     +N  K+VFTTRS +VC          V+CL+   A DL
Sbjct: 258 LFLDDIWEKVNLVEIGVPFPTIKNKCKVVFTTRSLDVCTSMGVEKPMEVQCLADNDAYDL 317

Query: 310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN 369
           F+ KVG+    S PEI  L++ V  +C GLPLAL  ++  MS +R+ +EW++ I  L   
Sbjct: 318 FQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSY 377

Query: 370 PSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSD 429
            ++F+GM + + P+L++SYD+L  + +K C LYC+LFPE+  IRK+ LI+ WI E  +  
Sbjct: 378 AAKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEYWICEEIIDG 437

Query: 430 FRSITTARNQGEYIIGSLKLACLL--ESGEYSEDFVKMHDVVRDMALWLASN---ESKIL 484
              I  A NQG  IIGSL  A LL  E      + V +HDVVR+MALW+AS+   +++  
Sbjct: 438 SEGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAF 497

Query: 485 VQRSSDCTNK--SADSWREDFRLSLWGSSIEYLP-ETPCPHLQTLLVRFTVLEIFPHRFF 541
           + R+S    +    ++W    R+SL  ++I +L     C  L TLL++ T LE     FF
Sbjct: 498 IVRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQSTHLEKISSEFF 557

Query: 542 ESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
            SM  L VLDLS N  L++LP  +  L++L+ LNLS+T I  LP  +  LK L  L L+ 
Sbjct: 558 NSMPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSSTGIRHLPKGLQELKKLIHLYLE- 616

Query: 602 MRHFHLIPARVFSSLLSLKVFSLFSTELI-ELHRMPPNQTTILDELECLGNQIYEISITL 660
            R   L      S L +LKV  L  +    +L  +   +   L+ LE L   I +   TL
Sbjct: 617 -RTSQLGSMVGISCLHNLKVLKLSGSSYAWDLDTV--KELEALEHLEVLTTTIDD--CTL 671

Query: 661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLR-----NMMHLETLNIVECSLERVD 715
           G+   L     S +L SCI+ L I +N + +    R      M  L+   I  C    + 
Sbjct: 672 GTDQFL----SSHRLMSCIRFLKISNNSNRNRNSSRISLPVTMDRLQEFTIEHCHTSEI- 726

Query: 716 PTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE 775
                  +F +L  +++  C  +R+LT++  APNL+ L +V+   L +II    + +  +
Sbjct: 727 -KMGRICSFSSLIEVNLSNCRRLRELTFLMFAPNLKRLHVVSSNQLEDIINKEKAHDGEK 785

Query: 776 SHNY-FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAK---NS 831
           S    F  L  + L +L  LK I    +PFP L+ ++V  CPNL++LP +  S K   N 
Sbjct: 786 SGIVPFPKLNELHLYNLRELKNIYWSPLPFPCLEKINVMGCPNLKKLPLDSKSGKHGGNG 845

Query: 832 LVSIRGSAEWWEQLQWEDEATKHVFAA 858
           L+      EW  +++WEDEATK  F A
Sbjct: 846 LIITHREMEWITRVEWEDEATKTRFLA 872

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 =  424 bits (1091), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 304/860 (35%), Positives = 450/860 (52%), Gaps = 55/860 (6%)

Query: 6   PILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRK 65
           P   IFT    C  + S+YI  +E NL +L +   ++++  +D+  RV  EE +   +R 
Sbjct: 9   PWNKIFTAACGCFLSDSNYIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKG-LQRL 67

Query: 66  KVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTL 125
            +V GWL+ V+    E   +L+    E  + CL G C+ +C +SY  G  V + + +V  
Sbjct: 68  ALVNGWLSRVQIVESEFKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKE 127

Query: 126 LRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGV 185
           L L  ++FE V    K+  P  +    + TVG D+ +   W  + D   +T+GLYGMGG+
Sbjct: 128 L-LSKKNFEVV--AQKII-PKAEKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGI 183

Query: 186 GKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDR 245
           GK TLL+  NNKF+++   FD+VI+V VSK+  LE IQ+ I  +L   D  W  + E  +
Sbjct: 184 GKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLR-PDKEWERETESKK 242

Query: 246 AVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-------- 297
           A  I  +L+RKKFVLLLDD+W  +DL K GV     +NGSKIVFTTRS+EVC        
Sbjct: 243 ASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQ 302

Query: 298 --VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRS 355
             V+CLSP+ A +LFR  VG+ +  SH +IP LA+ V  +C GLPLAL  I +AM  + +
Sbjct: 303 IKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKET 362

Query: 356 PREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKD 415
            +EW++ I+ L     +F GM   + PIL+FSYD+L +  +K CFLYCSLFPE+  I KD
Sbjct: 363 VQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKD 422

Query: 416 ELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALW 475
           +LI+ WI EG+++  R      NQG  IIG L  A LL   E + D VKMHDV+R+MALW
Sbjct: 423 KLIEYWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLLIECELT-DKVKMHDVIREMALW 481

Query: 476 LASNESKILVQRSSDCTNKSAD--------SWREDFRLSLWGSSIEYLPETP-CPHLQTL 526
           + S+      Q+ + C    A         SW    ++SL  + +E +  +P CP+L TL
Sbjct: 482 INSDFGN---QQETICVKSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTL 538

Query: 527 LVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPS 586
           L+ +  L      FF  M  L VLDLS N  L +LP E+  L +L+ LNLS T I+ LP 
Sbjct: 539 LLPYNKLVDISVGFFLFMPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLPV 598

Query: 587 EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDEL 646
            +  L+ L  L L+       +   + ++L +L+V  LF       + +      I++EL
Sbjct: 599 GLKKLRKLIYLNLEFTNVLESLVG-IATTLPNLQVLKLF-------YSLFCVDDIIMEEL 650

Query: 647 ECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMM--HLETL 704
           + L   +  ++ T+  A  L ++    +L S I+ L  + N+ +  + L ++    L+ L
Sbjct: 651 QRL-KHLKILTATIEDAMILERVQGVDRLASSIRGLC-LRNMSAPRVILNSVALGGLQQL 708

Query: 705 NIVECSL----------ERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLS 754
            IV C++          ER D        F  L  +++      RDL+W+  A NL+ + 
Sbjct: 709 GIVSCNISEIEIDWLSKERRDHRSTSSPGFKQLASITVIGLVGPRDLSWLLFAQNLKDIQ 768

Query: 755 LVNCQALSEIIESAGSSEVAESHN----YFAYLMVIDLDSLPSLKRICHGTMPFPSLQNV 810
           +     + EII       + + H      F  L  + L  L  L  IC      P+L+  
Sbjct: 769 VQYSPTIEEIINKQKGMSITKVHRDIVVPFGKLESLHLYQLAELTEICWNYQTLPNLRES 828

Query: 811 SVTNCPNLRELPFNFDSAKN 830
            V  CP L E   NF   K 
Sbjct: 829 YVNYCPKLLEDIANFPKLKG 848

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  421 bits (1081), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 302/887 (34%), Positives = 477/887 (53%), Gaps = 67/887 (7%)

Query: 10  IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVE 69
           +   L  C   K  YI+++++NL SL E    ++ L +D+ R+V+T E+   ++  ++ +
Sbjct: 14  LLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQI-K 72

Query: 70  GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
            WL  V++   + + +      E+++ C  G  +RN   SY  G+ V   ++ V  L+ +
Sbjct: 73  VWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSK 132

Query: 130 GQDFESVYFTYKLPRPPVDGMATEK-----TVGADSKLDEVWGCIEDQSEQTIGLYGMGG 184
           G  FE V        P    +  E+      VG ++ L++ W  + D   + +GLYGMGG
Sbjct: 133 GI-FEEV------AHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGG 185

Query: 185 VGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYD 244
           VGK TLL + NN+F D +   ++VI+V VS +  + KIQ+ I +K+      WN K E  
Sbjct: 186 VGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQ 245

Query: 245 RAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC------- 297
           +AV+IL  L +K+FVLLLDD+W+R++L++ G+     +NG KI FTTR + VC       
Sbjct: 246 KAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHD 305

Query: 298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRR 354
              V CL  + A DLF+ KVG+   +SHP+IP +A+ V   C GLPLAL  I   M+ ++
Sbjct: 306 PMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKK 365

Query: 355 SPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRK 414
           + +EW   +D      + F  +   + PIL++SYDNL  +++KTCFLYCSLFPE++ I K
Sbjct: 366 TTQEWDRAVDVSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEK 425

Query: 415 DELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLL-ESGEY-SEDFVKMHDVVRDM 472
           + LID WI EGF+    +   A  +G  I+G+L  A LL E G++ ++ +VKMHDVVR+M
Sbjct: 426 ERLIDYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREM 485

Query: 473 ALWLASNESKILVQRSSDCTNKSA---------DSWREDFRLSLWGSSIEYLPETP-CPH 522
           ALW+AS+    L +   +C  ++            W+   R+SL  + I+ +  +P CP 
Sbjct: 486 ALWIASD----LRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPK 541

Query: 523 LQTLLVRFTV-LEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI 581
           L TL ++    L      FF SM  L VLDLS+N++L+ LP ++  L++LR L+LS +SI
Sbjct: 542 LTTLFLQDNRHLVNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSI 601

Query: 582 EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTT 641
             LP  ++ LK L  L L+ M     +       L +LK   L +  +          T 
Sbjct: 602 GRLPVGLLKLKKLMHLNLESMLCLESVSG--IDHLSNLKTVRLLNLRMW--------LTI 651

Query: 642 ILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI---DLRNM 698
            L E       +  ++I + S+SAL ++  S +L  C++++++ + LD  S+    L ++
Sbjct: 652 SLLEELERLENLEVLTIEIISSSALEQLLCSHRLVRCLQKVSVKY-LDEESVRILTLPSI 710

Query: 699 MHLETLNIVECSLERVDPTFNGWTN---FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSL 755
             L  + I  C +  +    N       F NL  + I  C  ++DLTW+  APNL  L++
Sbjct: 711 GDLREVFIGGCGMRDIIIERNTSLTSPCFPNLSKVLITGCNGLKDLTWLLFAPNLTHLNV 770

Query: 756 VNCQALSEII--ESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT 813
            N + + EII  E A ++++      F  L  + L  LP LK I    +PFP L  ++V 
Sbjct: 771 WNSRQIEEIISQEKASTADIVP----FRKLEYLHLWDLPELKSIYWNPLPFPCLNQINVQ 826

Query: 814 N-CPNLRELPFNFDS---AKNSLVSIRGSAEWWEQLQWEDEATKHVF 856
           N C  L +LP +  S   A   LV   G  EW E+++WED+AT+  F
Sbjct: 827 NKCRKLTKLPLDSQSCIVAGEELVIQYGDEEWKERVEWEDKATRLRF 873

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	863
225465083	920	PREDICTED: probable disease resistance p	0.981	0.920	0.460	0.0
255552975	1066	Disease resistance protein RPS5, putativ	0.990	0.802	0.476	0.0
147782477	1377	hypothetical protein VITISV_002420 [Viti	0.986	0.618	0.452	0.0
225442517	909	PREDICTED: probable disease resistance p	0.989	0.939	0.427	0.0
359482561	1639	PREDICTED: probable disease resistance p	0.984	0.518	0.448	0.0
359482559	883	PREDICTED: disease resistance protein RP	0.987	0.964	0.443	0.0
225442539	882	PREDICTED: probable disease resistance p	0.983	0.962	0.445	0.0
147838868	882	hypothetical protein VITISV_011431 [Viti	0.983	0.962	0.444	0.0
225442515	904	PREDICTED: probable disease resistance p	0.976	0.932	0.429	0.0
147858210	892	hypothetical protein VITISV_011750 [Viti	0.987	0.955	0.439	0.0

>gi|225465083|ref|XP_002266249.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  721 bits (1860), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 412/894 (46%), Positives = 566/894 (63%), Gaps = 47/894 (5%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCV+PILD+ TRLW C+A +  YIR L  NLK L     ++  + ED+  RVE+EE+ Q
Sbjct: 1   MDCVTPILDVATRLWTCTAKRIVYIRRLPRNLKILRTAMEELGSVYEDVIERVESEEKLQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            +KR + VEGW+ +VE+  KE+  IL++G +E++ KCLG CC R+ YASYK+GK V+ +I
Sbjct: 61  -KKRTRAVEGWIRSVEAMEKEIKEILEEGDEEVQNKCLGTCCPRDSYASYKLGKRVSRKI 119

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             V  LR +   F  V     LP PPV    +EKTVG DS   EVW  ++D+  +TIG+Y
Sbjct: 120 RAVAALRSKANHFHEV--AVPLPSPPVIERPSEKTVGLDSPFLEVWRWLQDEQVRTIGIY 177

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           GMGGVGK  LLKK NNKFL  +H FD+VI+V VSK  NL+++ E +R KL+I D  W  +
Sbjct: 178 GMGGVGKTALLKKINNKFLQPSHDFDVVIWVVVSKPTNLQRVHETLRNKLEIPDGRWKNR 237

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--- 297
            E ++A EI   L+ KKFVLLLDD+WE LDL K G+ LS   N SKIVFTTRS +VC   
Sbjct: 238 SEDEKAAEIFAVLKTKKFVLLLDDIWEPLDLLKVGIPLSTVGNKSKIVFTTRSADVCRDM 297

Query: 298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM 350
                  VECL+ E AL LF  KVGED  NSHP+IP L++ VVGECKGLPLALI I RAM
Sbjct: 298 EAQNSIKVECLAWEEALTLFWAKVGEDALNSHPDIPKLSEIVVGECKGLPLALIIIGRAM 357

Query: 351 SSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEEN 410
           +  R+P +W+  I  L+  P++F GMG+ +FP+L FSYD+L D+ +K+CFLYCSLFPE+ 
Sbjct: 358 AGARTPEDWEKKIKMLKNYPAKFPGMGDSLFPVLAFSYDSLPDEAVKSCFLYCSLFPEDY 417

Query: 411 NIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGE-YSEDFVKMHDVV 469
            I    LI+LW+GEGFL ++  I  ARNQGE II  LK  CLLE+G    ++++KMHDV+
Sbjct: 418 EISPQHLIELWLGEGFLDEYDGIREARNQGEEIIERLKDVCLLENGRSQKQEYLKMHDVI 477

Query: 470 RDMALWLASNESK-----ILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPC-PHL 523
           RDMALWLAS   K     ++  +         + W E  R+SLW S IE L E PC P++
Sbjct: 478 RDMALWLASENGKKKNKFVVKDQVGLIRAHEVEKWNETQRISLWESRIEELREPPCFPNI 537

Query: 524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE 583
           +T       ++ FP  FF  M  ++VLDLS N +L +LP E+G L+NL+ LNLS TSIE 
Sbjct: 538 ETFSASGKCIKSFPSGFFAYMPIIRVLDLSNNYELIELPVEIGNLVNLQYLNLSRTSIEN 597

Query: 584 LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTIL 643
           +P E+  LKNLK L+LD M     +P+++ S L SL++FS+F++     HR      T+L
Sbjct: 598 IPVELKNLKNLKYLILDNMNSLQPLPSQMLSVLSSLQLFSMFNSPYKGDHR------TLL 651

Query: 644 DELECLGNQIYEISI---TLGSASALFKINFSWKLCSCIKRLTIMH--NLD----SHSID 694
           ++LE L   I +ISI   T+ SA ALF    S KL S  +RL + +  NL+    S  I+
Sbjct: 652 EDLEQL-EYINDISIDLTTVFSAQALFN---SHKLQSSTRRLRLFNCKNLNLVQLSPYIE 707

Query: 695 LRNMMHLETLNIVECSLER--VDPTF--NGWTNFHNLHHLSIRVCPVIRDLTWIREAPNL 750
           + ++        V+ SLE+  +   F  +G   +H L H++I  C  + +LTW+  APNL
Sbjct: 708 MLHISFCHAFKDVQISLEKEVLHSKFPRHGHCLYH-LCHVNISWCSKLLNLTWLIYAPNL 766

Query: 751 QFLSLVNCQALSEIIESAGS--SEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
           +FLS+ +C +L E++E   S  SE+  + + F+ L+ + L +LP L+ IC     FPSL+
Sbjct: 767 KFLSIDDCGSLEEVVEIEKSEVSELELNFDLFSRLVSLTLINLPKLRSICRWRQSFPSLR 826

Query: 809 NVSVTNCPNLRELPFNFDSAKN-SLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
            ++V  CP +R+LPF+ D+  + +L  I G  EWW+ L+WED+   H     FR
Sbjct: 827 EITVLGCPRIRKLPFDSDTGTSKNLEKIIGEQEWWDGLEWEDKTIMHSLTPYFR 880

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552975|ref|XP_002517530.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223543162|gb|EEF44694.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  715 bits (1845), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/894 (47%), Positives = 570/894 (63%), Gaps = 39/894 (4%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           M+ VSPILDI   LW  ++ +++++ HLE N  SL     Q+++L +D+  RVE +E +Q
Sbjct: 1   MELVSPILDIGRCLWQSASTRAAFLLHLEKNSDSLEIAIDQLKNLRDDVITRVEEQEDKQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
           Q +R K V  WL  VE    +V  +LQ+G + + KKCL  CC RNC ASYK+GK V++ I
Sbjct: 61  QMERTKRVSDWLAKVEQMEAQVTKVLQQGKEVVGKKCLLFCCPRNCRASYKLGKKVSKMI 120

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
            +V  L+  G DF+     Y+LPR PVD M  EKTVG DS  ++VW  IED+S   IGLY
Sbjct: 121 GEVDKLKKPG-DFD--VLAYRLPRAPVDEMPMEKTVGLDSMFEKVWRSIEDKSSGIIGLY 177

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW-NM 239
           G+GGVGK TLLKK NN+F +  H FD+VI+VAVSK+ N+E IQEVIR KL+I + IW N 
Sbjct: 178 GLGGVGKTTLLKKINNQFSNTTHDFDVVIWVAVSKQINVENIQEVIRNKLEIGNSIWINR 237

Query: 240 KGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-- 297
             E +RA+EI   LRRKKFVLLLDDVWERLDLSK GV      N S+++FTTRSEEVC  
Sbjct: 238 SDELERAIEIYRVLRRKKFVLLLDDVWERLDLSKVGVPFPGNNNESRVIFTTRSEEVCGY 297

Query: 298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARA 349
                   VECL+ + AL+LF+  VGED  +SH EIP LAQ V  +C+GLPLALIT  RA
Sbjct: 298 MEADRRFRVECLAEQDALNLFQKMVGEDTLSSHQEIPQLAQIVAKKCQGLPLALITTGRA 357

Query: 350 MSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEE 409
           M+SR+ P+EW+Y +  LQ  PS+F+GM + VFPIL+FSYD+L D+T+KTCFLYCSLFPE+
Sbjct: 358 MASRKKPQEWKYAMKALQSYPSKFSGMEDHVFPILKFSYDSLNDETVKTCFLYCSLFPED 417

Query: 410 NNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDF------V 463
           + I K+ELI+LWIGEGFL  F  I  AR +GEYIIGSLKLA LLE  E  E        V
Sbjct: 418 HIILKEELINLWIGEGFLDKFDDIHDARIEGEYIIGSLKLAGLLEGDELEEHLGVSTECV 477

Query: 464 KMHDVVRDMALWLA---SNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPC 520
            +HDV+RDMALWLA     E+KILV+      N   +  +E  ++S+W   +  +     
Sbjct: 478 WLHDVIRDMALWLACEHGKETKILVRDQPGRINLDQNQVKEVEKISMWSHHVNVIEGFLI 537

Query: 521 -PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT 579
            P+LQTL++R + L   P      +  LKVLDLS N  L +LP  +G LINL  LNLS T
Sbjct: 538 FPNLQTLILRNSRLISIPSEVILCVPGLKVLDLSSNHGLAELPEGIGKLINLHYLNLSWT 597

Query: 580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQ 639
           +I+E+ +EI  L  L+ L+LD  ++  LI   V SSL+SL+ FS  +T +  L+    N+
Sbjct: 598 AIKEMSTEIKKLTKLRCLVLDNTKYLQLIAKEVISSLISLQRFSKLAT-IDFLYNEFLNE 656

Query: 640 TTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTI-----MHNLDSHSID 694
             +LDEL+ L N + ++SI L ++ ++ K   S  L  CI+ LT+     M +LD     
Sbjct: 657 VALLDELQSLKN-LNDLSINLSTSDSVEKFFNSPILQGCIRELTLVECSEMTSLDISLSS 715

Query: 695 LRNMMHLETLNIVEC---SLERVDPTFNGWTN--FHNLHHLSIRVCPVIRDLTWIREAPN 749
           +  M HLE L +  C   S  RV P      N  F +L  L I +CP IRDLTW+  AP 
Sbjct: 716 MTRMKHLEKLELRFCQSISELRVRPCLIRKANPSFSSLRFLHIGLCP-IRDLTWLIYAPK 774

Query: 750 LQFLSLVNCQALSEIIES-AGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
           L+ L LVNC +++E+I +  G+ +V   HN F+ L  + L  LP+L  I H  + FPSL+
Sbjct: 775 LETLELVNCDSVNEVINANCGNVKVEADHNIFSNLTKLYLVKLPNLHCIFHRALSFPSLE 834

Query: 809 NVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFRE 862
            + V+ CP LR+LPF+ +S  N+L  I+G   WW+ LQW++E  K + ++KF E
Sbjct: 835 KMHVSECPKLRKLPFDSNS-NNTLNVIKGERSWWDGLQWDNEGLKDLLSSKFVE 887

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147782477|emb|CAN75117.1| hypothetical protein VITISV_002420 [Vitis vinifera]

 Score =  679 bits (1753), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/893 (45%), Positives = 566/893 (63%), Gaps = 42/893 (4%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDI--KRRVETEEQ 58
           MDCVSPILD+ TRLWDC+A +  YIR LE NL SL     ++ +L  D+  +   E +E+
Sbjct: 1   MDCVSPILDVATRLWDCTAKRVVYIRELEKNLNSLERLTKELSNLRTDVMAEVEREEKEE 60

Query: 59  QQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTE 118
             QR+RK  V GWL+AV++  +EV+ ILQ G QEI++KCLG  C +NC + Y++GKTVTE
Sbjct: 61  VPQRRRKNEVGGWLSAVQAMEEEVEEILQNGRQEIQQKCLG-TCPKNCRSRYRLGKTVTE 119

Query: 119 EISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIG 178
           +I+ VT L  +G  F+ V  T +LPR PVD     KTVG D   ++V  C+ED+  ++IG
Sbjct: 120 KINAVTELTDKGH-FDVV--TDRLPRAPVDERPMGKTVGLDLMFEKVRRCLEDEQVRSIG 176

Query: 179 LYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWN 238
           LYG+GGVGK TLL+K NN++   ++ FD+VI+V VSK  ++EKIQEVI KKL   ++ W 
Sbjct: 177 LYGIGGVGKTTLLRKINNEYFGKSNDFDVVIWVVVSKPISIEKIQEVILKKLTTPEHNWK 236

Query: 239 MKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGV-SLSDCQNGSKIVFTTRSEEVC 297
              + ++  EI   L+ K FV+LLDD+WERLDL + G+  LSD Q  S++V TTRSE VC
Sbjct: 237 SSSKEEKTAEIFKLLKAKNFVILLDDMWERLDLLEVGIPDLSD-QTKSRVVLTTRSERVC 295

Query: 298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA 347
                     VECL+P+ A  LF  KVGE++ NSHP+I  LA+ VV ECKGLPLALI I 
Sbjct: 296 DEMEVHKRMRVECLTPDEAFSLFCDKVGENILNSHPDIKRLAKIVVEECKGLPLALIVIG 355

Query: 348 RAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFP 407
           R+M+S ++PREW+  +  L+  P+ F+GMG+ VFPIL+FSYD+L +  +K+CFLYCSLFP
Sbjct: 356 RSMASMKTPREWEQALQMLKSYPAEFSGMGDHVFPILKFSYDHLYNPIIKSCFLYCSLFP 415

Query: 408 EENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHD 467
           E++ I  +ELIDLWIGEGFL+ F  I  ARNQG+ II SLKLACLLE G+ SE   KMHD
Sbjct: 416 EDHEIWNEELIDLWIGEGFLNKFADIHKARNQGDEIIRSLKLACLLE-GDVSEYTCKMHD 474

Query: 468 VVRDMALWLA-----SNESKILVQRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETP-C 520
           V+RDMALWL+      N    +++            W+E  R+SLW S+I E L  +P  
Sbjct: 475 VIRDMALWLSCESGEENHKSFVLEHVELIEAYEIVKWKEAQRISLWHSNINEGLSLSPRF 534

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS 580
            +LQTL++R + ++  P  FF+SM  ++VLDLSYN +L +LP E+  L +L  LNL  T+
Sbjct: 535 LNLQTLILRDSKMKSLPIGFFQSMPVIRVLDLSYNGNLVELPLEICRLESLEYLNLIRTN 594

Query: 581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQT 640
           I+ +P E+  L  L+ L+LD +    +IP+ V S LL+L++F +      ++  M  +  
Sbjct: 595 IKRMPIELKNLTKLRCLMLDYVEGLEVIPSNVISCLLNLQMFRMMHRFFSDI--MEYDAV 652

Query: 641 TILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH--NLDSHSIDLRNM 698
            +L E+ECL   +  ISI+L +  A+ K   S  L   I+ L +M    L    + L  +
Sbjct: 653 GVLQEMECL-EYLSWISISLFTVPAVQKYLTSLMLQKRIRELNLMACPGLKVVELPLSTL 711

Query: 699 MHLETLNIVEC-SLERVDPTFN------GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQ 751
             L  L    C  LERV             +NFHNL  + I  C  + DLTW+  AP+L+
Sbjct: 712 QTLTVLGFDRCDDLERVKINMGLSRGHISNSNFHNLVKVFILGCRFL-DLTWLIYAPSLE 770

Query: 752 FLSLVNCQALSEIIES--AGSSEVAESH-NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
            L++ +   + EII S   G SE+ + + + F+ L+ + LD LP+LK I    +PFPSL+
Sbjct: 771 LLAVRDSWEMEEIIGSDEYGDSEIDQQNLSIFSRLVTLWLDYLPNLKSIYKRPLPFPSLK 830

Query: 809 NVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
            + V +CPNLR+LP N +SA N+L +I G + WWE+L+WED+  K +F   F+
Sbjct: 831 EIRVLHCPNLRKLPLNSNSATNTLKAIVGESSWWEELEWEDDNLKRIFIPYFK 883

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442517|ref|XP_002278567.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  679 bits (1752), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 392/916 (42%), Positives = 551/916 (60%), Gaps = 62/916 (6%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD+ TRLWDC+A  +  IR L+ N+ SL     ++ D+++D+ RRVE EEQ+Q
Sbjct: 1   MDCVSPILDVVTRLWDCTAKHAVSIRDLQQNMDSLRNAMQELRDVHDDVNRRVEREEQRQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            R R   V GWL+ V+   KEV+ ILQKG QEI+KKC+G  C RNC + YK+GK  +E  
Sbjct: 61  MR-RTNEVNGWLHRVQVMEKEVNEILQKGDQEIQKKCIGTSCPRNCRSRYKLGKKASEMF 119

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             +T LR +G+ F+ V     LP+ PVD    EKTVG D    EV  CI+D+    IGLY
Sbjct: 120 GALTDLRNKGR-FDVV--ADSLPQAPVDERPLEKTVGLDLMYAEVCRCIQDEQLGIIGLY 176

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           GMGG GK TL+ K NN+F+  +  F++ I+V VS+  ++ K+QEVIR KLDI D  W  +
Sbjct: 177 GMGGAGKTTLMTKVNNEFIRASKDFEIAIWVVVSRPASVGKVQEVIRNKLDIPDNRWRDR 236

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--- 297
             Y++AVEI   L+ K+FV+LLDDVWERLDL K GV   D QN SK++ TTRS +VC   
Sbjct: 237 AGYEKAVEIFNVLKAKRFVMLLDDVWERLDLHKVGVPPPDSQNKSKVILTTRSLDVCRDM 296

Query: 298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM 350
                  VECL+ + A++LF+ KVGE   NSHP+IP  A+    ECKGLPLAL+TI RAM
Sbjct: 297 EAQKSIKVECLTEQEAMNLFKEKVGETTLNSHPDIPQFAEIAAKECKGLPLALVTIGRAM 356

Query: 351 SSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEEN 410
           + + +P+EW+  I  L+  PS+F+GMG+ VFPIL+FSYDNL+DDT+K CFLY ++F E+ 
Sbjct: 357 ARKNTPQEWERAIQMLKTYPSKFSGMGDHVFPILKFSYDNLSDDTIKACFLYLAIFREDY 416

Query: 411 NIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVR 470
            IR D+LI LWIGEGFL +  +I  A NQG  +I  LK ACL ES +     VKMHDV+R
Sbjct: 417 EIRDDDLIFLWIGEGFLDECDNIDEAFNQGHDMIEHLKTACLFESSDEYYHKVKMHDVIR 476

Query: 471 DMALWLAS----NESKILVQRSSDCTNKSADSWREDFRLSLWGSS-IEYLPETPCPHLQT 525
           DMALWL++    N++KILV+ ++         W+E  R+S W  S +E       P L T
Sbjct: 477 DMALWLSTTYSGNKNKILVEENNTVKAHRISKWKEAQRISFWTKSPLELTVPLYFPKLLT 536

Query: 526 LLVRFTV--LEIFPHRFFES-----MGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN 578
           L+VR      + F  RFF S     M  +KVLDLS  + +T+LP  +G L+ L  LNL+ 
Sbjct: 537 LIVRSKSGNFQTFTDRFFSSGFFHFMPIIKVLDLSGTM-ITELPTGIGNLVTLEYLNLTG 595

Query: 579 TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSL-FSTELIE------ 631
           T + EL +E+  LK ++ L+LD M +  +IP+ V S+L  +++F + FS  L+E      
Sbjct: 596 TLVTELSAELKTLKRIRYLVLDDMPYLQIIPSEVISNLSMMRIFLVGFSYSLVEEKASHS 655

Query: 632 -LHRMPPNQTTILDELECLGN------------QIYEISITLGSASALFKINFSWKLCSC 678
                P       + L    N             I  +   +  A +  K+  S KL + 
Sbjct: 656 PKEEGPDYSREDYEALYLWENNKALLEELEGLEHINWVYFPIVGALSFQKLLSSQKLQNV 715

Query: 679 IKRLTIMHNLDSHSIDLRNMMHLETLNIVEC-SLERVDPTF-----NGW-------TNFH 725
           ++ L +       S+ L  M HL+ L I EC  L++++         G+       +NF+
Sbjct: 716 MRGLGLGKLEGMTSLQLPRMKHLDNLKICECRELQKIEVDLEKEGGQGFVADYMPDSNFY 775

Query: 726 NLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMV 785
           +L  ++I   P + DLTWI   P+L+ L +  C+++ E+I  A  S V ++   F+ L  
Sbjct: 776 SLREVNIDQLPKLLDLTWIIYIPSLEQLFVHECESMEEVIGDA--SGVPQNLGIFSRLKG 833

Query: 786 IDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQL 845
           ++L +LP+L+ I    + FPSL+ + V  CPNLR+LP + +SA+NSL SIRG ++WW+ L
Sbjct: 834 LNLHNLPNLRSISRRALSFPSLRYLQVRECPNLRKLPLDSNSARNSLKSIRGESKWWQGL 893

Query: 846 QWEDEATKHVFAAKFR 861
           QWEDE  +  F   F+
Sbjct: 894 QWEDETFQLTFTPYFK 909

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482561|ref|XP_002277853.2| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  679 bits (1751), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 401/895 (44%), Positives = 569/895 (63%), Gaps = 45/895 (5%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDI--KRRVETEEQ 58
           MDCVSPILD+ TRLWDC+A +  YIR LE NL SL     ++ +L  D+  +   E +E+
Sbjct: 1   MDCVSPILDVATRLWDCTAKRVVYIRELEKNLNSLERLTKELSNLRTDVMAEVEREEKEE 60

Query: 59  QQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTE 118
             QR+RK  V GWL+AV++  ++V+ ILQ G QEI++KCLG  C +NC + Y++GKTVTE
Sbjct: 61  VPQRRRKNEVGGWLSAVQAMEEQVEEILQNGRQEIQQKCLG-TCPKNCRSRYRLGKTVTE 119

Query: 119 EISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIG 178
           +I+ VT L  +G  F+ V  T +LPR PVD     KTVG D   ++V  C+ED+  ++IG
Sbjct: 120 KINAVTELTDKGH-FDVV--TDRLPRAPVDERPMGKTVGLDLMFEKVRRCLEDEQVRSIG 176

Query: 179 LYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWN 238
           LYG+GG GK TLLKK NN++   ++ FD+VI+V VSK  ++EKIQEVI KKL I ++ W 
Sbjct: 177 LYGIGGAGKTTLLKKINNEYFGRSNDFDVVIWVVVSKSISIEKIQEVILKKLTIPEHNWK 236

Query: 239 MKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGV-SLSDCQNGSKIVFTTRSEEVC 297
              + ++A EI   L+ K FV+LLDD+WERLDL + G+  LSD      ++ TTRSE VC
Sbjct: 237 SSTKEEKAAEIFKLLKAKNFVILLDDMWERLDLLEVGIPDLSDQTKSRVVLLTTRSERVC 296

Query: 298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA 347
                     VECL+P+ A  LF  KVGE++ NSHP+I  LA+ VV EC+GLPLAL+ I 
Sbjct: 297 DEMEVHKRMRVECLTPDEAFSLFCDKVGENILNSHPDIKRLAKIVVEECEGLPLALVVIG 356

Query: 348 RAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFP 407
           R+M+SR++PREW+  +  L+  P+ F+GMG+ VFPIL+FSYD+L + T+K+CFLYCS+FP
Sbjct: 357 RSMASRKTPREWEQALQVLKSYPAEFSGMGDHVFPILKFSYDHLDNHTIKSCFLYCSIFP 416

Query: 408 EENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHD 467
           E++ I  +ELIDLWIGEGF++ F  +  ARNQG+ II SLKLACLLE G+ SE   KMHD
Sbjct: 417 EDSIIENEELIDLWIGEGFVNKFADVHKARNQGDGIIRSLKLACLLE-GDVSESTCKMHD 475

Query: 468 VVRDMALWLA--SNESK---ILVQRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETP-C 520
           V+RDMALWL+  S E K    +++            W+E  R+SLW S+I E L  +P  
Sbjct: 476 VIRDMALWLSCESGEEKHKSFVLKHVELIEAYEIVKWKEAQRISLWHSNINEGLSLSPRF 535

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS 580
            +LQTL++R + ++  P  FF+SM  ++VLDLS N +L +LP E+  L +L  LNL+ TS
Sbjct: 536 LNLQTLILRNSNMKSLPIGFFQSMPVIRVLDLSDNRNLVELPLEICRLESLEYLNLTGTS 595

Query: 581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS-LFSTELIELHRMPPNQ 639
           I+ +P E+  L  L+ L+LD +    +IP+ V S L +L++F  L + +++E      ++
Sbjct: 596 IKRMPIELKNLTKLRCLMLDHVVALEVIPSNVISCLPNLQMFRMLHALDIVEY-----DE 650

Query: 640 TTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH--NLDSHSIDLRN 697
             +L ELECL   +  ISITL +  A+     S  L  C++ L +M    L    + L  
Sbjct: 651 VGVLQELECL-EYLSWISITLLTVPAVQIYLTSLMLQKCVRDLCLMTCPGLKVVELPLST 709

Query: 698 MMHLETLNIVECS-LERVDPTFN------GWTNFHNLHHLSIRVCPVIRDLTWIREAPNL 750
           +  L  L    C+ LERV             +NFHNL  + I  C  + +LTW+  AP+L
Sbjct: 710 LQTLTVLRFEYCNDLERVKINMGLSRGHISNSNFHNLVKVFIMGCRFL-NLTWLIYAPSL 768

Query: 751 QFLSLVNCQALSEIIES--AGSSEVAESH-NYFAYLMVIDLDSLPSLKRICHGTMPFPSL 807
           +FLS+     + EII S   G SE+ + + + F+ L+ + L+ LP+LK I    +PFPSL
Sbjct: 769 EFLSVRASWEMEEIIGSDEYGDSEIDQQNLSIFSRLVTLQLEDLPNLKSIYKRALPFPSL 828

Query: 808 QNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFRE 862
           + ++V  CPNLR+LP N ++A N+L  I G   WWEQL+WED+  K +    F++
Sbjct: 829 KEINVGGCPNLRKLPLNSNNATNTLKEIAGHPTWWEQLEWEDDNLKRICTPYFKK 883

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482559|ref|XP_002277748.2| PREDICTED: disease resistance protein RPS5-like [Vitis vinifera]

 Score =  676 bits (1744), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 395/890 (44%), Positives = 555/890 (62%), Gaps = 38/890 (4%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD+ TRLWDC+A +  YI  LE NL SL     ++ +L++D+   VE EE+ Q
Sbjct: 1   MDCVSPILDVATRLWDCTAKRVVYIPELEKNLNSLKSLTEELSNLSKDVMVSVEREEELQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
           Q +R   V+GWL AV+    EV+ ILQ G QEI++KCLG  C +NC +SY++GK V+ +I
Sbjct: 61  QSRRTHEVDGWLLAVQVMEAEVEEILQNGHQEIQQKCLG-TCPKNCRSSYRLGKIVSRKI 119

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             VT L+ +G  F+  +  + LP  PVD     KTVG D   ++V  C+ED+  ++IGLY
Sbjct: 120 DAVTELKGKGH-FD--FVAHTLPCAPVDERPMGKTVGLDLMFEKVRRCLEDEQVRSIGLY 176

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           G+GG GK TLL+K NN++    + FD+VI++ VSK  N+  IQ+VI  KL   ++ W  +
Sbjct: 177 GIGGAGKTTLLRKINNEYFGKRNDFDVVIWIVVSKPINIGNIQDVILNKLPTPEHKWKNR 236

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--- 297
            + ++A EI   L+ K FV+LLDD+WERLDL + G+     Q  SK+V TTRSE VC   
Sbjct: 237 SKEEKAAEICKLLKAKNFVILLDDMWERLDLFEVGIPHLGDQTKSKVVLTTRSERVCDEM 296

Query: 298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM 350
                  V+CL+P+ A  LFR KVGE++ NSHPEI  LA+ V+ ECKGLPLALI I R+M
Sbjct: 297 EVHKRMRVKCLTPDEAFSLFRDKVGENILNSHPEIKRLAKIVIEECKGLPLALIVIGRSM 356

Query: 351 SSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEEN 410
           +SR++PREW+  I  L+  P+ F+GMG+ VFPIL+FSYD+L +DT+K+CFLYCS FPE++
Sbjct: 357 ASRKTPREWEQAIQVLKSYPAEFSGMGDQVFPILKFSYDHLDNDTIKSCFLYCSTFPEDH 416

Query: 411 NIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVR 470
            I  + LIDLWIGEGFL+ F  I  A NQG+ II SLKLACLLE G+ SED  KMHDV+R
Sbjct: 417 EILNEGLIDLWIGEGFLNKFDDIHKAHNQGDEIIRSLKLACLLE-GDVSEDTCKMHDVIR 475

Query: 471 DMALWLASNESK-----ILVQRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETPC-PHL 523
           DMALWL+ +  K      ++             W+E  R+SLW S+I +    +PC P+L
Sbjct: 476 DMALWLSCDYGKKRHKIFVLDHVQLIEAYEIVKWKEAQRISLWDSNINKGFSLSPCFPNL 535

Query: 524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE 583
           QTL++  + ++  P  FF+SM A++VLDLS N +L +LP E+  L +L  LNL+ TSI+ 
Sbjct: 536 QTLILINSNMKSLPIGFFQSMPAIRVLDLSRNEELVELPLEICRLESLEYLNLTWTSIKR 595

Query: 584 LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTIL 643
           +P E+  L  L+ L+LD ++   +IP+ V S L +L++F +     I L  +  ++  +L
Sbjct: 596 MPIELKNLTKLRCLILDRVKWLEVIPSNVISCLPNLQMFKMVHR--ISLDIVEYDEVGVL 653

Query: 644 DELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH--NLDSHSIDLRNMMHL 701
            ELECL   +  ISI+L +A  + K   S  L   I+ L +     L    + L  +  L
Sbjct: 654 QELECL-QYLSWISISLLTAPVVKKYLTSLILQKRIRELNMRTCPGLKVVELPLSTLQTL 712

Query: 702 ETLNIVECS-LERVDPTFN------GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLS 754
             L    C+ LERV             +NFHNL  ++I  C  + DLTW+  A +L+FL 
Sbjct: 713 TMLGFDHCNDLERVKINMGLSRGHISNSNFHNLVRVNISGCRFL-DLTWLIYASSLEFLL 771

Query: 755 LVNCQALSEIIES--AGSSEVAESH-NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVS 811
           +   + + EII S   G SE+ + + + F+ L+V+ L  LP+LK I    +PF SL+ + 
Sbjct: 772 VRTSRDMEEIIGSDECGDSEIDQQNLSIFSRLVVLWLHDLPNLKSIYRRALPFHSLKKIH 831

Query: 812 VTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
           V +CPNLR+LP N +SA N+L  I G + WWE LQWED+  K  F   F+
Sbjct: 832 VYHCPNLRKLPLNSNSASNTLKIIEGESSWWENLQWEDDNLKRTFTPYFK 881

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442539|ref|XP_002278938.1| PREDICTED: probable disease resistance protein At5g63020 [Vitis vinifera]

 Score =  673 bits (1736), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 398/893 (44%), Positives = 556/893 (62%), Gaps = 44/893 (4%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD+ T LWDC+A ++ YIR LE+NLKSL     ++ +L+ED+  RVE EEQ Q
Sbjct: 1   MDCVSPILDVATCLWDCTAKRAVYIRKLEENLKSLESSTEELRNLSEDVMGRVEREEQLQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            R R   V+GWL AV++   EV+ ILQ G QEI++KCLG  C +NC +SYK+GK V  +I
Sbjct: 61  SR-RTHEVDGWLRAVQAMEAEVEEILQNGDQEIQQKCLG-TCPKNCRSSYKLGKIVRRKI 118

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             VT L+ +G  F+  +  + LP  PVD     KT+G D   ++V  C+ED+  ++IGLY
Sbjct: 119 DAVTELKGKGH-FD--FVAHSLPCAPVDERPMGKTMGLDLMFEKVRRCLEDEQVRSIGLY 175

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           G+GGVGK TLL+K NN++    + FD+V+++ VSK  N+  IQ+VI  KL   D  W  +
Sbjct: 176 GIGGVGKTTLLQKINNEYFGKRNDFDVVMWIVVSKPINIGNIQDVILNKLTAPDDKWKNR 235

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGV-SLSDCQNGSKIVFTTRSEEVC-- 297
            + ++A EI   L+ K FV+LLDD+W+RL+L + G+  LSD Q  SK+V TTRSE VC  
Sbjct: 236 SKEEKAAEICKLLKSKNFVILLDDMWDRLNLLEVGIPDLSD-QTKSKVVLTTRSERVCDE 294

Query: 298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARA 349
                   VECL+ + A  LFR KVGE++ NSHP+I  LA+ VV ECKGLPLALI I RA
Sbjct: 295 MEVHKRMKVECLTRDEAFSLFRDKVGENILNSHPDIKRLAKIVVEECKGLPLALIVIGRA 354

Query: 350 MSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEE 409
           M+SR++P+EW+  I  L+  P++F+GMG+ VFPIL+FSYD+L +DT K+CFLYCSLFPE+
Sbjct: 355 MASRKTPQEWEQAIQVLKSYPAKFSGMGDQVFPILKFSYDHLDNDTTKSCFLYCSLFPED 414

Query: 410 NNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVV 469
           + I  ++LIDLWIGEGF+  F  I  ARNQGE II SLKLACLLE G  SE   KMHDV+
Sbjct: 415 HKIWIEDLIDLWIGEGFMDKFVDIYEARNQGEEIIRSLKLACLLEGG-VSEHTCKMHDVI 473

Query: 470 RDMALWLASN-----ESKILVQRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETPC-PH 522
           RDMALWL+ +         ++             W+E  R+SLW S+I E L  +PC  +
Sbjct: 474 RDMALWLSCDYGEEKHKSFVLDHGQLIEAYETVKWKEAQRISLWYSNINEGLSLSPCFLN 533

Query: 523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE 582
           L+TL++R + ++  P  FF+ M  ++VLDLSYN +L +LP E+  L +L  LNL+ T I+
Sbjct: 534 LRTLILRNSNMKSLPIGFFQFMPVIRVLDLSYNANLVELPLEICRLESLEFLNLARTGIK 593

Query: 583 ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTI 642
           ++P E+  L  L+ L+LD +    +IP  V S L +L++F +   +L+ + +       +
Sbjct: 594 KMPIELKNLTKLRCLILDNIWKLEVIPPNVISCLSNLQMFRM---QLLNIEKDIKEYEEV 650

Query: 643 --LDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH--NLDSHSIDLRNM 698
             L ELECL   +  ISITL +  A+ K   S  L  C++ L + +   L    + L  +
Sbjct: 651 GELQELECL-QYLSWISITLRTIPAVQKYLTSLMLQKCVRHLAMGNCPGLQVVELPLSTL 709

Query: 699 MHLETLNIVEC-SLERVDPTFN------GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQ 751
             L  L    C  LERV             +NFHNL  + I  C  + DLTW+  AP+L+
Sbjct: 710 QRLTVLEFQGCYDLERVKINMGLSRGHISNSNFHNLVKVFINGCQFL-DLTWLIYAPSLE 768

Query: 752 FLSLVNCQALSEIIES--AGSSEVAESH-NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
            L + +  A+ EII S   G SE+ + + + F+ L+V+ L  LP+LK I    +PFPSL+
Sbjct: 769 LLCVEDNPAMEEIIGSDECGDSEIDQQNLSIFSRLVVLWLRGLPNLKSIYKQALPFPSLK 828

Query: 809 NVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
            + V  CPNLR+LP N +SA N+L  I     WWE+L+ ED+  K  F +  +
Sbjct: 829 EIHVAGCPNLRKLPLNSNSATNTLKEIEAHRSWWEELEREDDNLKRTFTSYLK 881

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147838868|emb|CAN70333.1| hypothetical protein VITISV_011431 [Vitis vinifera]

 Score =  672 bits (1735), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 397/893 (44%), Positives = 556/893 (62%), Gaps = 44/893 (4%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD+ T LWDC+A ++ YIR LE+NLKSL     ++ +L+ED+  RVE EEQ Q
Sbjct: 1   MDCVSPILDVATCLWDCTAKRAVYIRKLEENLKSLESSTEELRNLSEDVMGRVEREEQLQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            R R   V+GWL AV++   EV+ ILQ G QEI++KCLG  C +NC +SYK+GK V  +I
Sbjct: 61  SR-RTHEVDGWLRAVQAMEAEVEEILQNGDQEIQQKCLG-TCPKNCRSSYKLGKIVRRKI 118

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             VT L+ +G  F+  +  + LP  PVD     KT+G D   ++V  C+ED+  ++IGLY
Sbjct: 119 DAVTELKGKGH-FD--FVAHSLPCAPVDERPMGKTMGLDLMFEKVRRCLEDEQVRSIGLY 175

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           G+GGVGK TLL+K NN++    + FD+V+++ VSK  N+  IQ+VI  KL   D  W  +
Sbjct: 176 GIGGVGKTTLLQKINNEYFGKRNDFDVVMWIVVSKPINIGNIQDVILNKLTAPDDKWKNR 235

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGV-SLSDCQNGSKIVFTTRSEEVC-- 297
            + ++A EI   L+ K FV+LLDD+W+RL+L + G+  LSD Q  SK+V TTRSE VC  
Sbjct: 236 SKEEKAAEICKLLKSKNFVILLDDMWDRLNLLEVGIPDLSD-QTKSKVVLTTRSERVCDE 294

Query: 298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARA 349
                   VECL+ + A  LFR KVGE++ NSHP+I  LA+ VV ECKGLPLALI I RA
Sbjct: 295 MEVHKRMKVECLTRDEAFSLFRDKVGENILNSHPDIKRLAKIVVEECKGLPLALIVIGRA 354

Query: 350 MSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEE 409
           M+SR++P+EW+  I  L+  P++F+GMG+ VFPIL+FSYD+L +DT K+CFLYCSLFPE+
Sbjct: 355 MASRKTPQEWEQAIQVLKSYPAKFSGMGDQVFPILKFSYDHLDNDTTKSCFLYCSLFPED 414

Query: 410 NNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVV 469
           + I  ++LIDLWIGEGF+  F  I  ARNQGE II SLKLACLLE G  SE   KMHDV+
Sbjct: 415 HKIWIEDLIDLWIGEGFMDKFVDIYEARNQGEEIIRSLKLACLLEGG-VSEHTCKMHDVI 473

Query: 470 RDMALWLASN-----ESKILVQRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETPC-PH 522
           RDMALWL+ +         ++             W+E  R+SLW S+I E L  +PC  +
Sbjct: 474 RDMALWLSCDYGEEKHKSFVLDHGQLIEAYETVKWKEAQRISLWYSNINEGLSLSPCFLN 533

Query: 523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE 582
           L+TL++R + ++  P  FF+ M  ++VLDLSYN +L +LP E+  L +L  LNL+ T I+
Sbjct: 534 LRTLILRNSNMKSLPIGFFQFMPVIRVLDLSYNANLVELPLEICRLESLEFLNLARTGIK 593

Query: 583 ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTI 642
           ++P E+  L  L+ L+LD +    +IP  V S L +L++F +   +L+ + +       +
Sbjct: 594 KMPIELKNLTKLRCLILDNIWKLEVIPPNVISCLSNLQMFRM---QLLNIEKDIKEYEEV 650

Query: 643 --LDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH--NLDSHSIDLRNM 698
             L ELECL   +  ISITJ +  A+ K   S  L  C++ L + +   L    + L  +
Sbjct: 651 GELQELECL-QYLSWISITJRTIPAVQKYLTSLMLQKCVRHLAMGNCPGLQVVELPLSTL 709

Query: 699 MHLETLNIVEC-SLERVDPTFN------GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQ 751
             L  L    C  LERV             +NFHNL  + I  C  + DLTW+  AP+L+
Sbjct: 710 QRLTVLEFQGCYDLERVKINMGLSRGHISNSNFHNLVKVFINGCQFL-DLTWLIYAPSLE 768

Query: 752 FLSLVNCQALSEIIES--AGSSEVAESH-NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
            L + +  A+ EII S   G SE+ + + + F+ L+V+ L  LP+LK I    +PFPSL+
Sbjct: 769 LLCVEDNPAMEEIIGSDECGDSEIDQQNLSIFSRLVVLWLRGLPNLKSIYKQALPFPSLK 828

Query: 809 NVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
            + V  CPNLR+LP N +SA N+L  I     WWE+L+ ED+  K  F +  +
Sbjct: 829 EIHVAGCPNLRKLPLNSNSATNTLKEIEAHRSWWEELEREDDNLKRTFTSYLK 881

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442515|ref|XP_002278439.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  669 bits (1726), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 395/919 (42%), Positives = 553/919 (60%), Gaps = 76/919 (8%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD+ TR+WDC+A  + YIR L++N+ SL     ++++++ED+K RVE EEQ+Q
Sbjct: 1   MDCVSPILDVVTRVWDCTAKHAVYIRDLQENMDSLRNAMQELKNVHEDVKGRVELEEQRQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            R R   V+GWL+ V +   +V+ IL+KG QEI+KKC G CC RNC +SYK+GK  T+++
Sbjct: 61  MR-RTNEVDGWLHGVLAMEIQVNEILEKGDQEIQKKCPGTCCPRNCRSSYKLGKKATKKL 119

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLY 180
             V  LR +G+ F+ V    +LP+ PVD    EKTVG D     V   I+D+    IGLY
Sbjct: 120 GAVIELRNKGR-FDVV--ADRLPQAPVDERPMEKTVGLDLMFTGVCRYIQDEELGIIGLY 176

Query: 181 GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMK 240
           GMGG GK TL+ K NN+F+  +  F++ I+V VS+  ++EK+Q+VIR KLDI D  W  +
Sbjct: 177 GMGGAGKTTLMTKVNNEFIRSSKSFEIAIWVVVSRPASVEKVQDVIRNKLDIPDDRWRNR 236

Query: 241 GEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--- 297
            E ++AV I   L+ K+FV+LLDDVWERLDL K GV   + QN SK++ TTRS +VC   
Sbjct: 237 TEDEKAVAIFNVLKAKRFVMLLDDVWERLDLQKVGVPSPNSQNKSKVILTTRSLDVCRDM 296

Query: 298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM 350
                  VECL+ + A++LF+ KVGE   NSH +IP LA+    EC+GLPLA++TI RAM
Sbjct: 297 EAQKSLKVECLTEDEAINLFKKKVGETTLNSHSDIPQLAEIAAKECQGLPLAIVTIGRAM 356

Query: 351 SSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEEN 410
           + +++P+EW+  I  L+  PS+F+GMG+ VFP+L+FSYDNL +DT++TCFLY ++FPE++
Sbjct: 357 ADKKTPQEWERAIQMLKTYPSKFSGMGDHVFPVLKFSYDNLPNDTIRTCFLYLAIFPEDH 416

Query: 411 NIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVR 470
            I  ++LI LWIGEGFL  F SI  A NQG +II  LK  CL E+G +  D VKMHDV+R
Sbjct: 417 EIWDEDLIFLWIGEGFLDGFASIDEALNQGHHIIEHLKTVCLFENGLF--DRVKMHDVIR 474

Query: 471 DMALWLAS----NESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPETPC-PHLQT 525
           DMALWLAS    N++ ILV+            W+E  RL L  SS+E L   P  P+L T
Sbjct: 475 DMALWLASEYRGNKNIILVEEVDTVEVYQVSKWKEAHRLHLATSSLEELTIPPSFPNLLT 534

Query: 526 LLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELP 585
           L+VR   LE FP  FF  M  +KVLDLS N  +T+LP  +  LI L+ LNLSNT++ EL 
Sbjct: 535 LIVRSRGLETFPSGFFHFMPVIKVLDLS-NSGITKLPTGIEKLITLQYLNLSNTTLRELS 593

Query: 586 SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST------------------ 627
           +E   LK L+ L+L+G     +I   V S L  L+VFS+ ST                  
Sbjct: 594 AEFATLKRLRYLILNG--SLEIIFKEVISHLSMLRVFSIRSTYHLSERNDISSSTEEEEE 651

Query: 628 ----------ELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCS 677
                     + I LH         L E       I  +S+ +    +  K+  S KL +
Sbjct: 652 EEANYSRKDDKAIYLHE----DNKALLEELEGLEHINWVSLPIVGTLSFQKLLNSQKLLN 707

Query: 678 CIKRLTIMHNLDSHSI-DLRNMMHLETLNIVECSLERVDPTFN--------GWTN----- 723
            ++ L +  NL+  SI  L  + HL +L I  C  E  D   N        G+       
Sbjct: 708 AMRDLDLW-NLEGMSILQLPRIKHLRSLTIYRCG-ELQDIKVNLENERGRRGFVADYIPN 765

Query: 724 --FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFA 781
             F+NL  + + + P + DLTW+   P+L+ L + +C+++ E+I  A  S V E+ + F+
Sbjct: 766 SIFYNLLSVQVHLLPKLLDLTWLIYIPSLKHLGVYHCESMEEVIGDA--SGVPENLSIFS 823

Query: 782 YLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEW 841
            L  + L  +P+L+ I    +PFPSL+ + V  CPNLR+LP + +SA+NSL +I G++EW
Sbjct: 824 RLKGLYLFFVPNLRSISRRALPFPSLETLMVRECPNLRKLPLDSNSARNSLKTIDGTSEW 883

Query: 842 WEQLQWEDEATKHVFAAKF 860
              LQWEDE  +  F   F
Sbjct: 884 CRGLQWEDETIQLTFTPYF 902

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147858210|emb|CAN79676.1| hypothetical protein VITISV_011750 [Vitis vinifera] gi|451799002|gb|AGF69199.1| disease resistance protein RPS5-like protein 3 [Vitis labrusca]

 Score =  663 bits (1711), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 395/899 (43%), Positives = 553/899 (61%), Gaps = 47/899 (5%)

Query: 1   MDCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQ 60
           MDCVSPILD  TRLWDC+A ++ YIRHL  NL SL  +  ++++L ED+K RVE EE++Q
Sbjct: 1   MDCVSPILDAATRLWDCTAKRAVYIRHLPQNLNSLRTEMEELKNLYEDVKERVEREEKRQ 60

Query: 61  QRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEI 120
            +K  +VV+GWL  VE+  KEV  IL KG +EI+KKCLG CC +NC ASY +GK V E++
Sbjct: 61  -KKHLRVVDGWLRGVEAMEKEVQEILAKGDEEIQKKCLGTCCPKNCGASYNLGKMVLEKM 119

Query: 121 SKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQ--TIG 178
             VT+ + EG +F  V     LP PPV     EKTVG D    +VW  ++D  EQ  +IG
Sbjct: 120 DAVTVKKTEGSNFSVV--AEPLPSPPVMERQLEKTVGQDLLFGKVWKWLQDGGEQVSSIG 177

Query: 179 LYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWN 238
           LYGMGGVGK TLL + NN+ L     FD VI+V VS+  N+EK+Q V+  K++I    W 
Sbjct: 178 LYGMGGVGKTTLLTRINNELLKTRLEFDAVIWVTVSRPANVEKVQRVLFNKVEIPQDKWE 237

Query: 239 MKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC- 297
            + E +RA EI   L+ KKFVLLLDD+WERLDLSK G+   + Q+  K+V TTRS++VC 
Sbjct: 238 GRSEDERAEEIFNVLKTKKFVLLLDDIWERLDLSKVGIPPLNPQDKLKMVLTTRSKDVCQ 297

Query: 298 ---------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIAR 348
                    + CL  E A  LF+ KVG D  NSHP+IP LA+ V  EC GLPLALITI R
Sbjct: 298 DMEVTESIEMNCLPWEDAFALFQTKVGADTINSHPDIPKLAEMVAKECCGLPLALITIGR 357

Query: 349 AMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPE 408
           AM+  ++P EW+  I  L+  P++F GM N +F  L FSYD+L D+T+K CFLYCSLFPE
Sbjct: 358 AMAGTKTPEEWEKKIKMLKNYPAKFPGMENRLFSRLAFSYDSLPDETIKLCFLYCSLFPE 417

Query: 409 ENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSED----FVK 464
           +  I    LI LWIGEGFL ++ +I  ARNQGE +I SL+LACLLE+G    D    ++K
Sbjct: 418 DYEISHRNLIQLWIGEGFLDEYDNIQQARNQGEEVIKSLQLACLLENGRSPLDEKDKYLK 477

Query: 465 MHDVVRDMALWLA----SNESKILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP 519
           MHDV+RDMALWLA      ++K +V+   +    +  + W+E  R+SLW ++IE L + P
Sbjct: 478 MHDVIRDMALWLARENGKKKNKFVVKDGVEPIRAQEVEKWKETQRISLWDTNIEELRKPP 537

Query: 520 C-PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN 578
             P++ T L     +  FP+RFF +M  ++VL LS N  LT+LPAE+G L+ L+ LN S 
Sbjct: 538 YFPNMDTFLASHKFIRSFPNRFFTNMPIIRVLVLSNNFKLTELPAEIGNLVTLQYLNFSG 597

Query: 579 TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN 638
            SI+ LP+E+  LK L+ L+L+ M     +P+++ SSL SL++FS++ST  I       +
Sbjct: 598 LSIKYLPAELKNLKKLRCLILNEMYSLKSLPSQMVSSLSSLQLFSMYST--IVGSDFTGD 655

Query: 639 QTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNM 698
               L E       I +ISI L S S++  +  S KL    +R T    L    ++L  +
Sbjct: 656 DEGRLLEELEQLEHIDDISIHLTSVSSIQTLLNSHKL----QRSTRWVQLGCERMNLVQL 711

Query: 699 -MHLETLNIVEC-SLERVDPTFNG----WTNF------HNLHHLSIRVCPVIRDLTWIRE 746
            +++ETL I  C  L+ V   F      ++ F      +NL  + I  C  + +LTW+  
Sbjct: 712 SLYIETLRIRNCFELQDVKINFEKEVVVYSKFPRHQCLNNLCDVDISGCGELLNLTWLIC 771

Query: 747 APNLQFLSLVNCQALSEIIESAGSS--EVAESH-NYFAYLMVIDLDSLPSLKRICHGTMP 803
           AP+LQFLS+  C+++ ++I+   S   E+   H   F+ L+ + L  LP L+ I    +P
Sbjct: 772 APSLQFLSVSACKSMEKVIDDEKSEVLEIEVDHVGVFSRLISLTLIWLPKLRSIYGRALP 831

Query: 804 FPSLQNVSVTNCPNLRELPFNFDSA-KNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
           FPSL+++ V+ CP+LR+LPF+ ++        I+G  EWW++L+WED+   H     F+
Sbjct: 832 FPSLRHIHVSGCPSLRKLPFHSNTGVSKKFEKIKGDQEWWDELEWEDQTIMHNLTPYFQ 890

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	863
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.961	0.934	0.371	1.4e-133
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.957	0.918	0.347	3.7e-119
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.958	0.927	0.345	1.6e-116
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.955	0.933	0.343	2.7e-116
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.953	0.925	0.345	4.4e-116
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.969	0.865	0.340	1.5e-113
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.952	0.915	0.346	1.5e-113
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.939	0.855	0.340	2.7e-107
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.930	0.943	0.349	4.4e-107
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.926	0.943	0.346	4.4e-107

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

 Score = 1309 (465.8 bits), Expect = 1.4e-133, P = 1.4e-133
 Identities = 330/889 (37%), Positives = 477/889 (53%)

Query:     3 CVSPIL--DIFTR-LWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXX 59
             CVS  +  D  T+ +  C      YI  LE+NL +L     QIE   ED+          
Sbjct:     4 CVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERR 63

Query:    60 XXXXXXXXXXGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEE 119
                       GW++ VE+ +  V+ +++    ++++ CL G C++N  +SY+ GK V + 
Sbjct:    64 GLQRLSVVQ-GWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKM 122

Query:   120 ISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGL 179
             I +V +LR +G DF  V    ++    V+   T   V  D  L+  W  + +     +GL
Sbjct:   123 IEEVEVLRYQG-DFAVV--AERVDAARVEERPTRPMVAMDPMLESAWNRLMEDEIGILGL 179

Query:   180 YGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNM 239
             +GMGGVGK TLL   NN+F  V   FD+VI++ VSKE  +++IQ+ I +KL   +  W  
Sbjct:   180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query:   240 KGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-- 297
             K E  +A  I   L+ K+FVLLLDD+W ++DL++ GV     +NG KIVFTTR +E+C  
Sbjct:   240 KTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGR 299

Query:   298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARA 349
                     V CL+P+ A DLF  KVGE    SHPEIPT+A+ V  +C+GLPLAL  I   
Sbjct:   300 MGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGET 359

Query:   350 MSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEE 409
             M+ +R+ +EW+  ID L  + + F+GM + + PIL++SYDNL  + LK CF YC+LFPE+
Sbjct:   360 MAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPED 419

Query:   410 NNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVV 469
             +NI K++L+D WIGEGF+   R+   A NQG  IIG L  +CLL   E +++ VKMHDVV
Sbjct:   420 HNIEKNDLVDYWIGEGFID--RNKGKAENQGYEIIGILVRSCLLM--EENQETVKMHDVV 475

Query:   470 RDMALWLASNESK----ILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHL 523
             R+MALW+AS+  K     +VQ      N    + W+   R+SL  ++IE + + P  P L
Sbjct:   476 REMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQL 535

Query:   524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE 583
              TLL+R   L      FF  M  L VLDLS N DL  LP E+   ++L+ L+LS T I  
Sbjct:   536 ITLLLRKNFLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRI 595

Query:   584 LPSEIMYLKNLKILLLDGMRHFHLIPARXXXXXXXXXXXXXXXTELIELHRMP-PNQTTI 642
              P+ ++ L+ L  L L+  R    I                   +++ L     P    +
Sbjct:   596 WPAGLVELRKLLYLNLEYTRMVESICG----------ISGLTSLKVLRLFVSGFPEDPCV 645

Query:   643 LDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHS--------ID 694
             L+EL+ L N +  ++ITLG AS L +   + +L SC + L I  NL+  S        +D
Sbjct:   646 LNELQLLEN-LQTLTITLGLASILEQFLSNQRLASCTRALRI-ENLNPQSSVISFVATMD 703

Query:   695 LRNMMHLETLNIVECSLERVDPTF-----NGWTNFHNLHHLSIRVCPVIRDLTWIREAPN 749
                 +H    +I E  ++R +           T F NL  +S+  C  +RDLTW+  APN
Sbjct:   704 SLQELHFADSDIWEIKVKRNETVLPLHIPTTTTFFPNLSQVSLEFCTRLRDLTWLIFAPN 763

Query:   750 LQFLSLVNCQALSEIIESAGSSEVAESHNY--FAYLMVIDLDSLPSLKRICHGTMPFPSL 807
             L  L +++   L E+I    + E AE  N   F  L  + L+++  LK I  G +PFP L
Sbjct:   764 LTVLRVISASDLKEVI----NKEKAEQQNLIPFQELKELRLENVQMLKHIHRGPLPFPCL 819

Query:   808 QNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKHVF 856
             Q + V  C  LR+LP NF S     + I    +W E L+WEDEATK  F
Sbjct:   820 QKILVNGCSELRKLPLNFTSVPRGDLVIEAHKKWIEILEWEDEATKARF 868

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 = 1173 (418.0 bits), Expect = 3.7e-119, P = 3.7e-119
 Identities = 303/872 (34%), Positives = 456/872 (52%)

Query:    13 RLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWL 72
             R+++C   KS YIR LE NL++L  +   +  +  ++                     WL
Sbjct:    16 RIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQV-WL 73

Query:    73 NAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQD 132
             + V S   E   +L     E++K CL G C++   +SYK GK V   + +V  L  EG +
Sbjct:    74 DRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEG-N 132

Query:   133 FESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLK 192
             F+ V  +   PR  V+   T+ T+G +  L++ W  + +     +GL+GMGGVGK TL K
Sbjct:   133 FDEV--SQPPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFK 190

Query:   193 KPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS 252
             K +NKF ++   FD+VI++ VSK   + K+QE I +KL + D +W  K E D+A +I   
Sbjct:   191 KIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRV 250

Query:   253 LRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLS 302
             L+ K+FVL+LDD+WE++DL   G+      N  K+ FTTRS EVC          V CL 
Sbjct:   251 LKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLE 310

Query:   303 PEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYV 362
             PE A +LF+ KVG++  +S P I  LA+ V  +C+GLPLAL  I   MSS+   +EW++ 
Sbjct:   311 PEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHA 370

Query:   363 IDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWI 422
             I     + + F+ M N + PIL++SYD+L D+ +K+CFLYC+LFPE+  I  ++LID WI
Sbjct:   371 IHVFNTSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLIDYWI 430

Query:   423 GEGFLSDFRSITTARNQGEYIIGSLKLACLLES-GEYSEDFVKMHDVVRDMALWLASNES 481
              EGF+ + + I  ARN+G  ++G+L  A LL   G Y   +  MHDVVR+MALW+AS+  
Sbjct:   431 CEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTY---YCVMHDVVREMALWIASDFG 487

Query:   482 K----ILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLP-ETPCPHLQTLLVRFTVLEI 535
             K     +VQ             W    ++SL  + IE +  E+ C  L TL ++   L+ 
Sbjct:   488 KQKENFVVQAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQSNKLKN 547

Query:   536 FPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLK 595
              P  F   M  L VLDLSYN D  +LP ++  L++L+ L+LSNTSIE +P  +  LK L 
Sbjct:   548 LPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLKELKKLT 607

Query:   596 ILLL---DGMRHF----HLIPARXXXXXXXXXXXXXXXT-ELIELHRMPPNQTTILDELE 647
              L L   D +        L+  R                 EL +L  +     T+  EL 
Sbjct:   608 FLDLTYTDRLCSISGISRLLSLRLLRLLGSKVHGDASVLKELQQLQNLQELAITVSAELI 667

Query:   648 CLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIV 707
              L  ++ ++   L     L K  F     + ++ L+ +   +S+  +++     ET    
Sbjct:   668 SLDQRLAKLISNLCIEGFLQK-PFDLSFLASMENLSSLRVENSYFSEIK-CRESET---- 721

Query:   708 ECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIES 767
             E S  R++P    +TN   L  L I  C  ++DLTWI  APNL  L + + + + EII  
Sbjct:   722 ESSYLRINPKIPCFTN---LSRLEIMKCHSMKDLTWILFAPNLVVLLIEDSREVGEIINK 778

Query:   768 AGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDS 827
               ++ +  S   F  L  + L +LP L+ I    +PFP L  + V+NCP LR+LP N  S
Sbjct:   779 EKATNLT-SITPFLKLEWLILYNLPKLESIYWSPLPFPVLLTMDVSNCPKLRKLPLNATS 837

Query:   828 A---KNSLVSIRGSAEWWEQLQWEDEATKHVF 856
                 +   + +    E   +L+WED+ TK+ F
Sbjct:   838 VSKVEEFEIHMYPPPEQENELEWEDDDTKNRF 869

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 1148 (409.2 bits), Expect = 1.6e-116, P = 1.6e-116
 Identities = 305/882 (34%), Positives = 451/882 (51%)

Query:    10 IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXX 69
             + TR + C  +  +YI  L+DN+ +L +    +    +D+                    
Sbjct:    14 VLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQV 73

Query:    70 GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
              WL  VE    +   +L     EI++ C    C+ N  +SY  G+ V   I +V  L   
Sbjct:    74 -WLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSN 132

Query:   130 GQDFESVYFTYKLPRPPVDGMATEKTV-GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKI 188
             G  FE V      P P ++    + T+ G ++     W  + D    T+GLYGMGGVGK 
Sbjct:   133 GF-FEIV----AAPAPKLEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKT 187

Query:   189 TLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVE 248
             TLL + +N   D  +  D+VI+V VS +  + KIQE I +KL      WN K E  +AV+
Sbjct:   188 TLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVD 247

Query:   249 ILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------V 298
             IL  L +K+FVLLLDD+W+++DL+K G+     +N  K+VFTTRS +VC          V
Sbjct:   248 ILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEV 307

Query:   299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPRE 358
             +CLS   A +LF+ KVG+    SHP+I  LA+ V G+C+GLPLAL  I   M+ +R+ +E
Sbjct:   308 QCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQE 367

Query:   359 WQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELI 418
             W + +D L    + F+GM + +  IL++SYDNL D  +++CF YC+L+PE+ +I+K  LI
Sbjct:   368 WHHAVDVLTSYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLI 427

Query:   419 DLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLL-ESGEYSEDFVKMHDVVRDMALW-- 475
             D WI EGF+        A NQG  I+G+L  ACLL E G+   + VKMHDVVR+MALW  
Sbjct:   428 DYWICEGFIDGNIGKERAVNQGYEILGTLVRACLLSEEGKNKLE-VKMHDVVREMALWTL 486

Query:   476 --LASNESKILVQRSSDCTN-KSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFT 531
               L  N+ + +VQ  S        + W    RLSL  + IE +  +P CP L TL ++  
Sbjct:   487 SDLGKNKERCIVQAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQEN 546

Query:   532 V-LEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMY 590
               L      FF  M  L VLDLS N  L  LP ++  L+ LR L+LS+T+IE LP+ +  
Sbjct:   547 KSLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQD 606

Query:   591 LKNLKILLLDGMRHFHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECLG 650
             LK L  L L+ MR    I                     I L  M   +  +L+ LE L 
Sbjct:   607 LKTLIHLNLECMRRLGSIAG---ISKLSSLRTLGLRNSNIMLDVMSVKELHLLEHLEIL- 662

Query:   651 NQIYEISITLGSASALFKINFSWKLCSCIKRLTI---MHNLDSHS-IDLRNMMHLETLNI 706
                   +I + S   L ++  +  L +C++ ++I   +++ +  + + L  M  L +L +
Sbjct:   663 ------TIDIVSTMVLEQMIDAGTLMNCMQEVSIRCLIYDQEQDTKLRLPTMDSLRSLTM 716

Query:   707 VECSLERVDPTFNGW-TN-----FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQA 760
               C +  ++     W TN     F NL  + I VC  ++DLTW+  APN+ +L +   + 
Sbjct:   717 WNCEISEIEIERLTWNTNPTSPCFFNLSQVIIHVCSSLKDLTWLLFAPNITYLMIEQLEQ 776

Query:   761 LSEIIESAGSSEVAES-----HNY--FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT 813
             L E+I  A ++ V E      H    F  L ++ L SLP LK I   ++ FP L  + V 
Sbjct:   777 LQELISHAKATGVTEEEQQQLHKIIPFQKLQILHLSSLPELKSIYWISLSFPCLSGIYVE 836

Query:   814 NCPNLRELPFNFDSAK--NSLVSIRGSAEWWEQLQWEDEATK 853
              CP LR+LP +  +       V      EW E ++W+DEATK
Sbjct:   837 RCPKLRKLPLDSKTGTVGKKFVLQYKETEWIESVEWKDEATK 878

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1146 (408.5 bits), Expect = 2.7e-116, P = 2.7e-116
 Identities = 301/876 (34%), Positives = 470/876 (53%)

Query:    10 IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXX 69
             +   L  C   K  YI+++++NL SL E    ++ L +D+                    
Sbjct:    14 LLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKV 73

Query:    70 GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
              WL  V++   + + +      E+++ C  G  +RN   SY  G+ V   ++ V  L+ +
Sbjct:    74 -WLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNIVEDLKSK 132

Query:   130 GQDFESVYFTYKLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKI 188
             G  FE V   +   R   +    + T VG ++ L++ W  + D   + +GLYGMGGVGK 
Sbjct:   133 GI-FEEV--AHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGLYGMGGVGKT 189

Query:   189 TLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVE 248
             TLL + NN+F D +   ++VI+V VS +  + KIQ+ I +K+      WN K E  +AV+
Sbjct:   190 TLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVD 249

Query:   249 ILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------V 298
             IL  L +K+FVLLLDD+W+R++L++ G+     +NG KI FTTR + VC          V
Sbjct:   250 ILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEV 309

Query:   299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPRE 358
              CL  + A DLF+ KVG+   +SHP+IP +A+ V   C GLPLAL  I   M+ +++ +E
Sbjct:   310 RCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQE 369

Query:   359 WQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELI 418
             W   +D      + F  +   + PIL++SYDNL  +++KTCFLYCSLFPE++ I K+ LI
Sbjct:   370 WDRAVDVSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLI 429

Query:   419 DLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLL-ESGEYS-EDFVKMHDVVRDMALWL 476
             D WI EGF+    +   A  +G  I+G+L  A LL E G+++ + +VKMHDVVR+MALW+
Sbjct:   430 DYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWI 489

Query:   477 ASNESKI---LVQRSSDCTNK--SADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRF 530
             AS+  K     + R+    N+      W+   R+SL  + I+ +  +P CP L TL ++ 
Sbjct:   490 ASDLRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTLFLQD 549

Query:   531 TV-LEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIM 589
                L      FF SM  L VLDLS+N++L+ LP ++  L++LR L+LS +SI  LP  ++
Sbjct:   550 NRHLVNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLPVGLL 609

Query:   590 YLKNLKILLLDGMRHFHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECL 649
              LK L  L L+ M     +                    L+ L RM     ++L+ELE L
Sbjct:   610 KLKKLMHLNLESMLCLESVSG-------IDHLSNLKTVRLLNL-RMWLT-ISLLEELERL 660

Query:   650 GNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIV-- 707
              N +  ++I + S+SAL ++  S +L  C++++++ + LD  S+ +  +  +  L  V  
Sbjct:   661 EN-LEVLTIEIISSSALEQLLCSHRLVRCLQKVSVKY-LDEESVRILTLPSIGDLREVFI 718

Query:   708 -ECSLERVDPTFN-GWTN--FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSE 763
               C +  +    N   T+  F NL  + I  C  ++DLTW+  APNL  L++ N + + E
Sbjct:   719 GGCGMRDIIIERNTSLTSPCFPNLSKVLITGCNGLKDLTWLLFAPNLTHLNVWNSRQIEE 778

Query:   764 II--ESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTN-CPNLRE 820
             II  E A ++++      F  L  + L  LP LK I    +PFP L  ++V N C  L +
Sbjct:   779 IISQEKASTADIVP----FRKLEYLHLWDLPELKSIYWNPLPFPCLNQINVQNKCRKLTK 834

Query:   821 LPFNFDS---AKNSLVSIRGSAEWWEQLQWEDEATK 853
             LP +  S   A   LV   G  EW E+++WED+AT+
Sbjct:   835 LPLDSQSCIVAGEELVIQYGDEEWKERVEWEDKATR 870

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 1144 (407.8 bits), Expect = 4.4e-116, P = 4.4e-116
 Identities = 303/877 (34%), Positives = 446/877 (50%)

Query:    21 KSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWLNAVESEIK 80
             + SYI +L  NL SL +    ++    D+                     WL +V     
Sbjct:    25 RGSYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQN 84

Query:    81 EVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTY 140
             + + +L+    E+++ CL G C+++   SY+ GK V   + +V  L  +G  F+ V  + 
Sbjct:    85 QFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGF-FDVV--SE 141

Query:   141 KLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFL 199
               P   VD +  + T VG +  L++ W  + +     +GLYGMGGVGK TLL K NNKF 
Sbjct:   142 ATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFS 201

Query:   200 DVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFV 259
              ++  FD+VI+V VS+   + KIQ  I +K+ +    W+ K +   AV+I   LRR+KFV
Sbjct:   202 KIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFV 261

Query:   260 LLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAALDL 309
             LLLDD+WE+++L   GV      NG K+ FTTRS +VC          V CL PE + DL
Sbjct:   262 LLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDL 321

Query:   310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN 369
             F+ KVG++   SHP+IP LA+ V  +C+GLPLAL  I  AM+ +R+  EW + ID L  +
Sbjct:   322 FQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSS 381

Query:   370 PSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSD 429
                F+GM + +  +L++SYDNL  + +K+CFLYCSLFPE+  I K+ L+D WI EGF+++
Sbjct:   382 AIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEGFINE 441

Query:   430 FRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASN----ESKILV 485
                     NQG  IIG+L  ACLL   E ++  VKMHDVVR+MALW++S+    + K +V
Sbjct:   442 KEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIV 501

Query:   486 QRSSDCTN-KSADSWREDFRLSLWGSSIEYLPET-PCPHLQTLLVRFTVLEIFPHRFFES 543
             +             W    ++SL  + IE + ++  C  L TL ++   +      FF  
Sbjct:   502 RAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFRC 561

Query:   544 MGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR 603
             M  L VLDLS N  L +LP E+  L +LR  NLS T I +LP  +  LK L  L L+ M 
Sbjct:   562 MPHLVVLDLSENQSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHMS 621

Query:   604 HFHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECLGNQIYEISITLGSA 663
                 I                    L+++        +++ EL+ L   +  I++ + S+
Sbjct:   622 SLGSILGISNLWNLRTLGLRDSRL-LLDM--------SLVKELQLL-EHLEVITLDISSS 671

Query:   664 SALFKINFSWKLCSCIKRLTIMHNLDSHSI---DLRNMMHLETLNIVECSLERVD---PT 717
                  +  S +L  CIK +   + L   S+    L  M +L  L I  C +  +     T
Sbjct:   672 LVAEPLLCSQRLVECIKEVDFKY-LKEESVRVLTLPTMGNLRKLGIKRCGMREIKIERTT 730

Query:   718 FNGWTN-------FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGS 770
              +   N       F NL  + I  C  ++DLTW+  APNL FL +      S+ +E   S
Sbjct:   731 SSSSRNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEV----GFSKEVEDIIS 786

Query:   771 SEVAESHNY----FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFD 826
              E AE H+     F  L  + L  L  LKRI    + FP L+ + V  C  LR+LP +  
Sbjct:   787 EEKAEEHSATIVPFRKLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKLPLDSK 846

Query:   827 S--AKNSLVSIRGSAEWWEQLQWEDEATKHVFAAKFR 861
             S  A   LV   G  EW E+++WED+AT+  F    R
Sbjct:   847 SGIAGEELVIYYGEREWIERVEWEDQATQLRFLPSSR 883

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

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

 Score = 1120 (399.3 bits), Expect = 1.5e-113, P = 1.5e-113
 Identities = 300/880 (34%), Positives = 448/880 (50%)

Query:    13 RLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWL 72
             R+  C   K  YIR+LE NL++L  +   +     ++                     WL
Sbjct:    17 RIIRCLCGKG-YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQV-WL 74

Query:    73 NAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQD 132
             + V S   E   +L     E++K CL G C++   +SYK GK V   + +VT L+ EG +
Sbjct:    75 DRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEG-N 133

Query:   133 FESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLK 192
             F+ V  +   PR  V+   T+ T+G +  L + W  + +     +GL+GMGGVGK TL K
Sbjct:   134 FDEV--SQPPPRSEVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFK 191

Query:   193 KPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS 252
             K +NKF +    FD+VI++ VS+   L K+QE I +KL + D +W  K E D+A +I   
Sbjct:   192 KIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRV 251

Query:   253 LRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLS 302
             L+ K+FVL+LDD+WE++DL   G+      N  K+ FTTR ++VC          V+CL 
Sbjct:   252 LKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLE 311

Query:   303 PEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYV 362
             PE A +LF+ KVG++   S P I  LA+ V  +C+GLPLAL  I   M+S+   +EW++ 
Sbjct:   312 PEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHA 371

Query:   363 IDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWI 422
             ID L R+ + F+ M N + PIL++SYD+L D+ +K+CFLYC+LFPE++ I    LI+ WI
Sbjct:   372 IDVLTRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLINKWI 431

Query:   423 GEGFLSDFRSITTARNQGEYIIGSLKLACLLESGE-YSEDFVKMHDVVRDMALWLASN-- 479
              EGF+ + + I  ARN+G  ++G+L  A LL +   + +  V MHDVVR+MALW+AS+  
Sbjct:   432 CEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDVVREMALWIASDFG 491

Query:   480 ---ESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLP-ETPCPHLQTLLVRFTVLEI 535
                E+ ++  R           W    R+SL  + IE +  E+ C  L TL ++   L+ 
Sbjct:   492 KQKENYVVRARVGLHEIPKVKDWGAVRRMSLMMNEIEEITCESKCSELTTLFLQSNQLKN 551

Query:   536 FPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLK 595
                 F   M  L VLDLS+N D  +LP ++  L++L+ L+LS T IE+LP  +  LK L 
Sbjct:   552 LSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELKKLI 611

Query:   596 ILLLDGMRHF-------HLIPAR-XXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELE 647
              L L              L+  R                 EL +L  +   + T   EL 
Sbjct:   612 FLNLCFTERLCSISGISRLLSLRWLSLRESNVHGDASVLKELQQLENLQDLRITESAELI 671

Query:   648 CLGNQIYEISITLGSASALFKINFSWKLCSCIKRL--TIMHNLDSHSIDLRNMMHLETLN 705
              L  ++ ++   L     L K  F     + ++ L   ++ N     I+++     ET  
Sbjct:   672 SLDQRLAKLISVLRIEGFLQK-PFDLSFLASMENLYGLLVENSYFSEINIK-CRESET-- 727

Query:   706 IVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEII 765
               E S   ++P    +TN   L  L I  C  ++DLTWI  APNL  L + + + + EII
Sbjct:   728 --ESSYLHINPKIPCFTN---LTGLIIMKCHSMKDLTWILFAPNLVNLDIRDSREVGEII 782

Query:   766 ESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNF 825
                 +  +      F  L  + L  LP L+ I    +PFP L N+ V  CP LR+LP N 
Sbjct:   783 NKEKAINLTSIITPFQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVKYCPKLRKLPLNA 842

Query:   826 DSAKN-SLVSIR-GSAEWWEQLQWEDEATKHVFAAKFREL 863
              S        IR    E   +L+WEDE TK+ F    + L
Sbjct:   843 TSVPLVEEFEIRMDPPEQENELEWEDEDTKNRFLPSIKPL 882

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1120 (399.3 bits), Expect = 1.5e-113, P = 1.5e-113
 Identities = 300/866 (34%), Positives = 454/866 (52%)

Query:    21 KSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWLNAVESEIK 80
             K SY  +LE NL +L     +++   +D+                     WLN VE+   
Sbjct:    23 KVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKV-WLNRVETIES 81

Query:    81 EVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTY 140
              V+ +L     E+++ CL G C+++   SY+ GK+V  ++ +V   +LE + FE +  + 
Sbjct:    82 RVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVE--KLERRVFEVI--SD 137

Query:   141 KLPRPPVDGMATEKT-VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFL 199
             +     V+    + T VG ++ LD  W  + +     +GLYGMGGVGK TLL + NNKF 
Sbjct:   138 QASTSEVEEQQLQPTIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFS 197

Query:   200 DVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFV 259
                  FD VI+V VSKE N+E I + I +K+ IS   W+ K +Y + V +   LR+ +FV
Sbjct:   198 KYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFV 257

Query:   260 LLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAALDL 309
             L LDD+WE+++L + GV     +N  K+VFTTRS +VC          V+CL+   A DL
Sbjct:   258 LFLDDIWEKVNLVEIGVPFPTIKNKCKVVFTTRSLDVCTSMGVEKPMEVQCLADNDAYDL 317

Query:   310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN 369
             F+ KVG+    S PEI  L++ V  +C GLPLAL  ++  MS +R+ +EW++ I  L   
Sbjct:   318 FQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSY 377

Query:   370 PSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSD 429
              ++F+GM + + P+L++SYD+L  + +K C LYC+LFPE+  IRK+ LI+ WI E  +  
Sbjct:   378 AAKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEYWICEEIIDG 437

Query:   430 FRSITTARNQGEYIIGSLKLACLL-ESGEYS-EDFVKMHDVVRDMALWLASN---ESKIL 484
                I  A NQG  IIGSL  A LL E  E    + V +HDVVR+MALW+AS+   +++  
Sbjct:   438 SEGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAF 497

Query:   485 VQRSSDCTNK--SADSWREDFRLSLWGSSIEYLP-ETPCPHLQTLLVRFTVLEIFPHRFF 541
             + R+S    +    ++W    R+SL  ++I +L     C  L TLL++ T LE     FF
Sbjct:   498 IVRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQSTHLEKISSEFF 557

Query:   542 ESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
              SM  L VLDLS N  L++LP  +  L++L+ LNLS+T I  LP  +  LK L  L L+ 
Sbjct:   558 NSMPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSSTGIRHLPKGLQELKKLIHLYLER 617

Query:   602 MRHFHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECLGNQIYEISITLG 661
                   +                  +   +L  +   +   L+ LE L   I +   TLG
Sbjct:   618 TSQLGSMVG-ISCLHNLKVLKLSGSSYAWDLDTV--KELEALEHLEVLTTTIDDC--TLG 672

Query:   662 SASALFKINFSWKLCSCIKRLTIMHNLD----SHSIDLR-NMMHLETLNIVECSLERVDP 716
             +   L     S +L SCI+ L I +N +    S  I L   M  L+   I  C    +  
Sbjct:   673 TDQFLS----SHRLMSCIRFLKISNNSNRNRNSSRISLPVTMDRLQEFTIEHCHTSEIK- 727

Query:   717 TFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAES 776
                   +F +L  +++  C  +R+LT++  APNL+ L +V+   L +II    + +  +S
Sbjct:   728 -MGRICSFSSLIEVNLSNCRRLRELTFLMFAPNLKRLHVVSSNQLEDIINKEKAHDGEKS 786

Query:   777 HNY-FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAK---NSL 832
                 F  L  + L +L  LK I    +PFP L+ ++V  CPNL++LP +  S K   N L
Sbjct:   787 GIVPFPKLNELHLYNLRELKNIYWSPLPFPCLEKINVMGCPNLKKLPLDSKSGKHGGNGL 846

Query:   833 VSIRGSAEWWEQLQWEDEATKHVFAA 858
             +      EW  +++WEDEATK  F A
Sbjct:   847 IITHREMEWITRVEWEDEATKTRFLA 872

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1061 (378.5 bits), Expect = 2.7e-107, P = 2.7e-107
 Identities = 294/863 (34%), Positives = 443/863 (51%)

Query:    21 KSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWLNAVESEIK 80
             K  Y+ +LE NL++L +    +  +  D+                     W++ VE    
Sbjct:    19 KRKYLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKE-WISMVEEIEP 77

Query:    81 EVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTY 140
             + + +L +   EI++    G C+    ++Y+  + V   +  V  LR +G  FE+V    
Sbjct:    78 KANRLLDESVSEIQRLSRYGYCSLIPASTYRYSEKVLTTMEGVETLRSKGV-FEAVVHR- 135

Query:   141 KLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLD 200
              LP   +     + TV     LD  W  + D +  T+G+YG GGVGK TLL K  NK L 
Sbjct:   136 ALPPLVIKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLLTKLRNKLL- 194

Query:   201 VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVL 260
             V+  F LVIFV V  E  +E IQ+ I K+L +    W  + +  +A EIL  L+ K+FVL
Sbjct:   195 VD-AFGLVIFVVVGFE-EVESIQDEIGKRLGLQ---WRRETKERKAAEILAVLKEKRFVL 249

Query:   261 LLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVE-----------CLSPEAALDL 309
             LLD +   LDL + GV      NG KIVFTT+S E C E           CLSPE A DL
Sbjct:   250 LLDGIQRELDLEEIGVPFPSRDNGCKIVFTTQSLEACDESKWVDAKVEITCLSPEEAWDL 309

Query:   310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN 369
             F+  VGE+   SH +IP LA+ V   C+GLPLAL  I  AMS +R+ REW+Y I  L  +
Sbjct:   310 FQETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHVLASS 369

Query:   370 PSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSD 429
              + F  M +   PIL+  YDN++D+ ++ CFLYC+LFPE  +I K++L++ WI EG L+ 
Sbjct:   370 TAEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVNYWICEGILAK 429

Query:   430 FRSITTARNQGEYIIGSL-KLACLLESGEYSEDFVKMHDVVRDMALWLASNESKILV--Q 486
                   A  QG  II  L ++  L+ESG  + + VKMH +VR+MALW+AS E  ++V  +
Sbjct:   430 -EDREEAEIQGYEIICDLVRMRLLMESG--NGNCVKMHGMVREMALWIAS-EHFVVVGGE 485

Query:   487 RSSDCTNKSADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTV-LEIFPHRFFESM 544
             R     N   + WR   R+S+  + I+ + ++P C  L TL+ R    L+     FF+ M
Sbjct:   486 RIHQMLN--VNDWRMIRRMSVTSTQIQNISDSPQCSELTTLVFRRNRHLKWISGAFFQWM 543

Query:   545 GALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRH 604
               L VLDLS+N +L +LP E+ +L+ LR LNLS T I+ LP   + LK LK L+      
Sbjct:   544 TGLVVLDLSFNRELAELPEEVSSLVLLRFLNLSWTCIKGLP---LGLKELKSLI------ 594

Query:   605 FHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECLGNQIYEISITLGSAS 664
              HL                    +++ L         ++++++ L   + E+S+T+  +S
Sbjct:   595 -HLDLDYTSNLQEVDVIASLLNLQVLRLFHSVSMDLKLMEDIQLL-KSLKELSLTVRGSS 652

Query:   665 ALFKINFSWKLCSCIKRLTIMHN--LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWT 722
              L ++    +L S I+RL +     +D   + L  +  L  L+I+ C++  +   +    
Sbjct:   653 VLQRLLSIQRLASSIRRLHLTETTIVDGGILSLNAIFSLCELDILGCNILEITIDWRCTI 712

Query:   723 N------FHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEII--ESAGSSEVA 774
                    F N+  ++I  C  +RDLTW+  AP L  LS+  C  + E+I  + A +    
Sbjct:   713 QREIIPQFQNIRTMTIHRCEYLRDLTWLLLAPCLGELSVSECPQMEEVISKDKAMAKLGN 772

Query:   775 ESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVS 834
              S   F  L  + LD LP L+ I    +PFP L+ + +  CP LR LPFN +S   + V 
Sbjct:   773 TSEQPFQNLTKLVLDGLPKLESIYWTPLPFPVLEYLVIRRCPELRRLPFNSESTIGNQVE 832

Query:   835 IRGSAEWWEQLQWEDEATKHVFA 857
                  +  + ++WEDEATK  F+
Sbjct:   833 TIIEEQVIKIVEWEDEATKQRFS 855

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 1059 (377.8 bits), Expect = 4.4e-107, P = 4.4e-107
 Identities = 294/841 (34%), Positives = 425/841 (50%)

Query:    17 CSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXXGWLNAVE 76
             C     +YI  +E NL++L     ++E+  +D+                    GWL+ V+
Sbjct:    21 CLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQ-GWLSRVK 79

Query:    77 SEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESV 136
                 +V+ +L+    + E+ CL G C++N  +    G  V +++  V  L  +G  FE V
Sbjct:    80 DVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGV-FEVV 138

Query:   137 YFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNN 196
                 K+P P V+    + TVG D+ +   W  +     +T+GLYGMGGVGK TLL   NN
Sbjct:   139 --AEKIPAPKVEKKHIQTTVGLDAMVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINN 196

Query:   197 KFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRK 256
             KFL+  + FDLVI+V VSK+   E IQE I  +L +    W    E ++A  I   L  K
Sbjct:   197 KFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLHRG-WKQVTEKEKASYICNILNVK 255

Query:   257 KFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLSPEAA 306
             KFVLLLDD+W  +DL K GV     +NGSKIVFTTRS++VC          V+CL P+ A
Sbjct:   256 KFVLLLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEA 315

Query:   307 LDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDEL 366
              +LF+ KVG     SH +IPTLA+ V  +C GLPLAL  I +AM+SR + +EWQ+VI  L
Sbjct:   316 WELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVL 375

Query:   367 QRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGF 426
               +   F  M   + P+L+FSYD+L D+ +K CFLYCSLFPE+  +RK+ELI+ W+ EGF
Sbjct:   376 NSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEGF 435

Query:   427 LSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNESK---- 482
             +        A N+G  IIGSL  A LL  GE +   VKMHDV+R+MALW+ASN  K    
Sbjct:   436 IDGNEDEDGANNKGHDIIGSLVRAHLLMDGELTTK-VKMHDVIREMALWIASNFGKQKET 494

Query:   483 ILVQRSSDCTNKSAD-SWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRF 540
             + V+      +   D +W    R+SL  + I  +  +   P+L TLL++   L      F
Sbjct:   495 LCVKPGVQLCHIPKDINWESLRRMSLMCNQIANISSSSNSPNLSTLLLQNNKLVHISCDF 554

Query:   541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD 600
             F  M AL VLDLS N  L+ LP  +  L +L+ +NLS T I+ LP     LK L  L L+
Sbjct:   555 FRFMPALVVLDLSRNSSLSSLPEAISKLGSLQYINLSTTGIKWLPVSFKELKKLIHLNLE 614

Query:   601 GMRHFHLIPARXXXXXXXXXXXXXXXTELIELHRMPPNQTTILDELECLGNQIYEISITL 660
                    I                     I+   M   +  +L+ L+ L   I + ++ L
Sbjct:   615 FTDELESIVGIATSLPNLQVLKLFSSRVCIDGSLM--EELLLLEHLKVLTATIKD-ALIL 671

Query:   661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLN--IVECSL--ERVDP 716
              S   + ++  S +   C++ ++    +  +++ L  + HLE +   I E  +  ER   
Sbjct:   672 ESIQGVDRLVSSIQAL-CLRNMSAPVII-LNTVALGGLQHLEIVGSKISEIKIDWERKGR 729

Query:   717 TFNGWTNFHNLHHLSI-RVCPVI--RDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEV 773
                  T+     HLS+  +  +   RDLTW+  A NL+ LS+     + EII       +
Sbjct:   730 GELKCTSSPGFKHLSVVEIFNLEGPRDLTWLLFAQNLRRLSVTLSLTIEEIINKEKGMSI 789

Query:   774 AESH-NY---FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAK 829
                H N    F  L  +++  L  LKRIC      P+L+   V +C  L E    F    
Sbjct:   790 TNVHPNIVVPFGKLEFLEVRGLDELKRICWNPPALPNLRQFDVRSCLKLPEAATEFPRHA 849

Query:   830 N 830
             N
Sbjct:   850 N 850

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1059 (377.8 bits), Expect = 4.4e-107, P = 4.4e-107
 Identities = 296/855 (34%), Positives = 442/855 (51%)

Query:    10 IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIXXXXXXXXXXXXXXXXXXXX 69
             IFT    C  + S+YI  +E NL +L +   ++++  +D+                    
Sbjct:    13 IFTAACGCFLSDSNYIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVN- 71

Query:    70 GWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLE 129
             GWL+ V+    E   +L+    E  + CL G C+ +C +SY  G  V + + +V  L L 
Sbjct:    72 GWLSRVQIVESEFKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKEL-LS 130

Query:   130 GQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKIT 189
              ++FE V    K+  P  +    + TVG D+ +   W  + D   +T+GLYGMGG+GK T
Sbjct:   131 KKNFEVV--AQKII-PKAEKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGIGKTT 187

Query:   190 LLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEI 249
             LL+  NNKF+++   FD+VI+V VSK+  LE IQ+ I  +L   D  W  + E  +A  I
Sbjct:   188 LLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLR-PDKEWERETESKKASLI 246

Query:   250 LISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VE 299
               +L+RKKFVLLLDD+W  +DL K GV     +NGSKIVFTTRS+EVC          V+
Sbjct:   247 NNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVD 306

Query:   300 CLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREW 359
             CLSP+ A +LFR  VG+ +  SH +IP LA+ V  +C GLPLAL  I +AM  + + +EW
Sbjct:   307 CLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEW 366

Query:   360 QYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELID 419
             ++ I+ L     +F GM   + PIL+FSYD+L +  +K CFLYCSLFPE+  I KD+LI+
Sbjct:   367 RHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLIE 426

Query:   420 LWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASN 479
              WI EG+++  R      NQG  IIG L  A LL   E + D VKMHDV+R+MALW+ S+
Sbjct:   427 YWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLLIECELT-DKVKMHDVIREMALWINSD 485

Query:   480 ----ESKILVQRSSDCTNKSAD-SWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVL 533
                 +  I V+  +       D SW    ++SL  + +E +  +P CP+L TLL+ +  L
Sbjct:   486 FGNQQETICVKSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLSTLLLPYNKL 545

Query:   534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
                   FF  M  L VLDLS N  L +LP E+  L +L+ LNLS T I+ LP   + LK 
Sbjct:   546 VDISVGFFLFMPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLP---VGLKK 602

Query:   594 LKILLLDGMRHFHLIPARXXXXXXXXXXXXXXXTELIEL-HRMPPNQTTILDELECLGNQ 652
             L+ L+   +   +++ +                 ++++L + +      I++EL+ L   
Sbjct:   603 LRKLIYLNLEFTNVLES------LVGIATTLPNLQVLKLFYSLFCVDDIIMEELQRL-KH 655

Query:   653 IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMM--HLETLNIVECS 710
             +  ++ T+  A  L ++    +L S I+ L +  N+ +  + L ++    L+ L IV C+
Sbjct:   656 LKILTATIEDAMILERVQGVDRLASSIRGLCL-RNMSAPRVILNSVALGGLQQLGIVSCN 714

Query:   711 L----------ERVDPTFNGWTNFHNLHHLSIRVCPVI--RDLTWIREAPNLQFLSLVNC 758
             +          ER D        F  L   SI V  ++  RDL+W+  A NL+ + +   
Sbjct:   715 ISEIEIDWLSKERRDHRSTSSPGFKQL--ASITVIGLVGPRDLSWLLFAQNLKDIQVQYS 772

Query:   759 QALSEIIESAGSSEVAESHNY----FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTN 814
               + EII       + + H      F  L  + L  L  L  IC      P+L+   V  
Sbjct:   773 PTIEEIINKQKGMSITKVHRDIVVPFGKLESLHLYQLAELTEICWNYQTLPNLRESYVNY 832

Query:   815 CPNLRELPFNFDSAK 829
             CP L E   NF   K
Sbjct:   833 CPKLLEDIANFPKLK 847

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8RXS5	DRL40_ARATH	No assigned EC number	0.3860	0.9443	0.9177	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	863
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-78
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	8e-06
PLN03210	1153	PLN03210, PLN03210, Resistant to P	9e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	2e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-04
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.001
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.002
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.003
PRK13902	900	PRK13902, alaS, alanyl-tRNA synthetase; Provisiona	0.004

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

 Score =  255 bits (653), Expect = 2e-78
 Identities = 114/282 (40%), Positives = 167/282 (59%), Gaps = 16/282 (5%)

Query: 159 DSKLDEVWGCIEDQSEQT--IGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE 216
           +  ++ +   + + S+    +G+ GMGGVGK TL K+  N    V   FD V +V VSK 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSKT 60

Query: 217 GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGV 276
               ++Q+ I ++L + D  W  K E + AV+I  +L RK+F+L+LDDVWE+ D  K GV
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 277 SLSDCQNGSKIVFTTRSEEVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEI 325
              D +NGS+++ TTRSE V            VE L PE + +LF  KV E      PE+
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 326 PTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPILR 385
             +A+ +V +CKGLPLAL  +   ++ + + +EW++V+++L    +   G+ N V  IL 
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL-NEVLSILS 239

Query: 386 FSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFL 427
            SYDNL    LK CFLY +LFPE+ NIRK++LI LWI EGF+
Sbjct: 240 LSYDNLPMH-LKRCFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Length = 285

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

 Score = 43.7 bits (104), Expect = 8e-06
 Identities = 20/60 (33%), Positives = 32/60 (53%)

Query: 522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI 581
           +L++L +    L + P   F+ +  LKVLDLS N   +  P     L +LR L+LS  ++
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 49.1 bits (117), Expect = 9e-06
 Identities = 73/300 (24%), Positives = 125/300 (41%), Gaps = 37/300 (12%)

Query: 543 SMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN-TSIEELPSEIMYLKNLKILLLDG 601
           S+  L+ +DL  + +L ++P ++    NL  L LS+ +S+ ELPS I YL  L+ L +  
Sbjct: 632 SLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSR 690

Query: 602 MRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMP--PNQTTILDELECLGNQIYEISIT 659
             +  ++P  +     +LK  SL+   L    R+   P+ +T +  L+     I E    
Sbjct: 691 CENLEILPTGI-----NLK--SLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSN 743

Query: 660 LGSASALFKINF----SWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVD 715
           L     L ++      S KL   ++ LT +  + S S+    +  + +L  +  S++   
Sbjct: 744 L-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQ--- 799

Query: 716 PTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQAL------SEIIES-- 767
                  N H L HL I  C  +  L       +L+ L L  C  L      S  I    
Sbjct: 800 -------NLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDISTNISDLN 852

Query: 768 ---AGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFN 824
               G  EV      F+ L  +D++   +L+R+         L+ V  ++C  L E  +N
Sbjct: 853 LSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWN 912

syringae 6; Provisional. Length = 1153

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

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 52/229 (22%), Positives = 84/229 (36%), Gaps = 27/229 (11%)

Query: 501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
               L+L              +L +L +    +   P         LK LDLS N  +  
Sbjct: 96  PSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN-KIES 154

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPAR--------- 611
           LP+ +  L NL+ L+LS   + +LP  +  L NL  L L G +    +P           
Sbjct: 155 LPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNK-ISDLPPEIELLSALEE 213

Query: 612 -------------VFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI 658
                          S+L +L    L + +L +L        + L+ L+   NQI  IS 
Sbjct: 214 LDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPE-SIGNLSNLETLDLSNNQISSISS 272

Query: 659 TLGSASALFKINFSWKLCSCIKRLTI-MHNLDSHSIDLRNMMHLETLNI 706
            LGS + L +++ S    S    L   +  L    ++L   +    L +
Sbjct: 273 -LGSLTNLRELDLSGNSLSNALPLIALLLLLLELLLNLLLTLKALELKL 320

Length = 394

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

 Score = 44.1 bits (104), Expect = 4e-04
 Identities = 34/105 (32%), Positives = 56/105 (53%), Gaps = 9/105 (8%)

Query: 537 PHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLK 595
           P   F +  +L+ L+LS N + T      G++ NL  L+LSN  +  E+P++I    +LK
Sbjct: 110 PDDIFTTSSSLRYLNLSNN-NFTG-SIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLK 167

Query: 596 ILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI-----ELHRM 635
           +L L G      IP  + ++L SL+  +L S +L+     EL +M
Sbjct: 168 VLDLGGNVLVGKIPNSL-TNLTSLEFLTLASNQLVGQIPRELGQM 211

Length = 968

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

 Score = 43.7 bits (103), Expect = 4e-04
 Identities = 74/274 (27%), Positives = 110/274 (40%), Gaps = 49/274 (17%)

Query: 543 SMGALKVLD---LSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILL 598
           S+G LK L    L  N     +P  + +L  L  L+LS+ S+  E+P  ++ L+NL+IL 
Sbjct: 255 SLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILH 314

Query: 599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTEL---IELHRMPPNQTTILDELECLGNQIYE 655
           L        IP    +SL  L+V  L+S +    I  +    N  T+LD      N   E
Sbjct: 315 LFSNNFTGKIP-VALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLD--LSTNNLTGE 371

Query: 656 ISITLGSASALFK-INFSWKL----------CSCIKRLTIMHNLDSHSIDL-RNMMHLET 703
           I   L S+  LFK I FS  L          C  ++R+ +  N  S S +L      L  
Sbjct: 372 IPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDN--SFSGELPSEFTKLPL 429

Query: 704 LNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSE 763
           +  ++ S    +    G                 I    W  + P+LQ LSL   +    
Sbjct: 430 VYFLDIS----NNNLQG----------------RINSRKW--DMPSLQMLSLARNKFFGG 467

Query: 764 IIESAGSSEVAE---SHNYFAYLMVIDLDSLPSL 794
           + +S GS  +     S N F+  +   L SL  L
Sbjct: 468 LPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSEL 501

Length = 968

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

 Score = 37.5 bits (88), Expect = 0.001
 Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 3/57 (5%)

Query: 547 LKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDG 601
           LK LDLS N  LT +P      L NL+ L+LS  ++  +  E    L +L+ L L G
Sbjct: 2   LKSLDLSNN-RLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSG 57

Length = 60

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

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 2/61 (3%)

Query: 570 NLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTE 628
           NL+ L+LSN  +  +P      L NLK+L L    +   I    FS L SL+   L    
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDL-SGNNLTSISPEAFSGLPSLRSLDLSGNN 59

Query: 629 L 629
           L
Sbjct: 60  L 60

Length = 60

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

 Score = 35.9 bits (84), Expect = 0.003
 Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPS 586
           L+ LDLS N  +T LP  +  L NL  L+LS   I +L  
Sbjct: 3   LETLDLSNN-QITDLP-PLSNLPNLETLDLSGNKITDLSP 40

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

>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional

 Score = 40.6 bits (96), Expect = 0.004
 Identities = 21/66 (31%), Positives = 38/66 (57%), Gaps = 4/66 (6%)

Query: 24  YIRHLEDNLKSLSEK-KSQIEDLNEDIKRRV-ETEEQQQQRK--RKKVVEGWLNAVESEI 79
           YI+ LED LK  +E      E L + ++R   E +EQ+++ +  RK++ E   + + S+ 
Sbjct: 737 YIQELEDLLKEAAEILGVPPEQLPKTVERFFEEWKEQKKEIEKLRKELAELLASELLSKA 796

Query: 80  KEVDGI 85
           +EV G+
Sbjct: 797 EEVGGV 802

Length = 900

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	863
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;	99.85
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.85
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.85
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.84
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.79
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.78
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.77
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.72
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.63
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.62
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.59
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.56
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.54
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.49
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.48
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.48
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.43
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.42
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.35
PRK04841	903	transcriptional regulator MalT; Provisional	99.33
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.28
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.16
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.09
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.08
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.07
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.05
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.04
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.03
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.01
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.96
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.92
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.81
PF05729	166	NACHT: NACHT domain	98.81
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.8
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.8
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.67
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.64
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.63
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.61
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.6
PRK06893	229	DNA replication initiation factor; Validated	98.6
KOG4341	483	consensus F-box protein containing LRR [General fu	98.57
PRK13342	413	recombination factor protein RarA; Reviewed	98.56
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.55
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.55
COG3899	849	Predicted ATPase [General function prediction only	98.51
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.49
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.48
PRK04195	482	replication factor C large subunit; Provisional	98.47
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.47
KOG4341	483	consensus F-box protein containing LRR [General fu	98.45
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.45
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.44
PTZ00202	550	tuzin; Provisional	98.43
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.43
PF13173	128	AAA_14: AAA domain	98.43
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.42
cd01128	249	rho_factor Transcription termination factor rho is	98.41
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.39
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.38
PRK12402	337	replication factor C small subunit 2; Reviewed	98.37
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.36
PLN03150	623	hypothetical protein; Provisional	98.32
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.32
KOG2028	554	consensus ATPase related to the helicase subunit o	98.31
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.31
PLN03025	319	replication factor C subunit; Provisional	98.31
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.31
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.3
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.28
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.27
COG3903	414	Predicted ATPase [General function prediction only	98.25
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK08727	233	hypothetical protein; Validated	98.24
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.22
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.22
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.22
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.2
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.2
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK13341	725	recombination factor protein RarA/unknown domain f	98.18
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK09376	416	rho transcription termination factor Rho; Provisio	98.17
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.17
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.16
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.16
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.15
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.13
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.13
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.11
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.11
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.1
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.09
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.09
PRK08084	235	DNA replication initiation factor; Provisional	98.08
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.06
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.06
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.05
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.01
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.01
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.01
TIGR00767	415	rho transcription termination factor Rho. Members	98.01
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.99
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.98
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.97
PRK09087	226	hypothetical protein; Validated	97.95
PLN03150	623	hypothetical protein; Provisional	97.95
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.95
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.94
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.93
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.93
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.91
PHA02544	316	44 clamp loader, small subunit; Provisional	97.9
PRK05642	234	DNA replication initiation factor; Validated	97.9
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.89
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.88
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.87
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.85
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.84
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.83
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.82
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.82
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.82
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.79
PRK15386	426	type III secretion protein GogB; Provisional	97.78
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.78
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.78
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.77
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.77
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.77
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.76
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.75
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.75
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.73
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.71
PRK15386	426	type III secretion protein GogB; Provisional	97.69
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.68
PF14516	331	AAA_35: AAA-like domain	97.67
CHL00181	287	cbbX CbbX; Provisional	97.66
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.65
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.64
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.6
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.59
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.58
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.58
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.54
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.53
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.52
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.51
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.51
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.49
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.46
PRK06620	214	hypothetical protein; Validated	97.45
smart00382	148	AAA ATPases associated with a variety of cellular	97.44
PRK10536	262	hypothetical protein; Provisional	97.44
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.42
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.41
PRK08116	268	hypothetical protein; Validated	97.41
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.38
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.37
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.37
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.36
PRK08118	167	topology modulation protein; Reviewed	97.33
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.33
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.31
CHL00095	821	clpC Clp protease ATP binding subunit	97.29
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.29
PRK12422	445	chromosomal replication initiation protein; Provis	97.29
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.23
PF00004	132	AAA: ATPase family associated with various cellula	97.2
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.2
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.2
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.2
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.17
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.15
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.13
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.13
PRK07261	171	topology modulation protein; Provisional	97.09
PRK10865	857	protein disaggregation chaperone; Provisional	97.08
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.07
CHL00176	638	ftsH cell division protein; Validated	97.04
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.02
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.02
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.02
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.98
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.95
PRK08181	269	transposase; Validated	96.95
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.89
PRK12608	380	transcription termination factor Rho; Provisional	96.89
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.87
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.84
PRK10865	857	protein disaggregation chaperone; Provisional	96.81
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.8
PRK06835	329	DNA replication protein DnaC; Validated	96.76
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.74
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.72
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.69
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.69
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.68
PRK09183	259	transposase/IS protein; Provisional	96.68
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.67
PRK06526	254	transposase; Provisional	96.66
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.66
PRK06921	266	hypothetical protein; Provisional	96.66
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.64
PRK10867	433	signal recognition particle protein; Provisional	96.64
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.63
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.63
PRK12377	248	putative replication protein; Provisional	96.61
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.6
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.6
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.6
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.59
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.57
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.56
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.54
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.53
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.48
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.47
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.46
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.46
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.44
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.43
PRK04296	190	thymidine kinase; Provisional	96.42
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.42
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.37
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.35
PRK08939	306	primosomal protein DnaI; Reviewed	96.35
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.32
PRK07952	244	DNA replication protein DnaC; Validated	96.31
PRK06696	223	uridine kinase; Validated	96.3
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.3
CHL00195	489	ycf46 Ycf46; Provisional	96.29
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.28
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.27
PRK05541	176	adenylylsulfate kinase; Provisional	96.25
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.25
TIGR00959	428	ffh signal recognition particle protein. This mode	96.25
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.23
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.22
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.21
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.19
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.16
PRK04132	846	replication factor C small subunit; Provisional	96.15
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.1
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.1
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.09
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.08
PRK15455	644	PrkA family serine protein kinase; Provisional	96.07
CHL00095	821	clpC Clp protease ATP binding subunit	96.03
PRK09354	349	recA recombinase A; Provisional	96.03
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.02
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.0
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.99
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.99
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.99
PRK06964	342	DNA polymerase III subunit delta'; Validated	95.96
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.95
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.92
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.89
PRK06547	172	hypothetical protein; Provisional	95.89
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.88
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	95.86
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.85
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.85
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.82
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.81
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.8
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.79
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	95.79
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.79
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.77
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.75
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.74
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.74
PTZ00301	210	uridine kinase; Provisional	95.69
PRK07667	193	uridine kinase; Provisional	95.68
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.66
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.66
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.65
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.64
PHA00729	226	NTP-binding motif containing protein	95.63
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.63
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.61
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.6
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.6
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.59
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.59
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.57
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.57
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.54
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.53
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.49
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.46
PRK06067	234	flagellar accessory protein FlaH; Validated	95.45
PRK08233	182	hypothetical protein; Provisional	95.43
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.41
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.39
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.37
PRK05480	209	uridine/cytidine kinase; Provisional	95.36
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.36
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.35
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.33
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.32
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.32
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.32
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.31
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.3
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.3
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.28
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.26
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.26
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.26
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.23
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.22
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.2
PRK13531	498	regulatory ATPase RavA; Provisional	95.19
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.16
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.15
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.14
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.14
PRK04328	249	hypothetical protein; Provisional	95.13
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.09
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	95.09
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.07
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.06
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.06
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.05
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.04
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.03
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.99
PRK06762	166	hypothetical protein; Provisional	94.98
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.98
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.98
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.98
PRK08149	428	ATP synthase SpaL; Validated	94.97
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	94.96
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	94.96
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.95
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.95
PRK05922	434	type III secretion system ATPase; Validated	94.95
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	94.94
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.9
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	94.89
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	94.85
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	94.83
PF07726	131	AAA_3: ATPase family associated with various cellu	94.83
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.82
PRK03839	180	putative kinase; Provisional	94.81
PTZ00494	664	tuzin-like protein; Provisional	94.8
PRK12678	672	transcription termination factor Rho; Provisional	94.8
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.78
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	94.76
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.76
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.75
PTZ00088	229	adenylate kinase 1; Provisional	94.75
COG2884	223	FtsE Predicted ATPase involved in cell division [C	94.74
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.74
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.72
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.69
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.66
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.66
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.64
PRK14974	336	cell division protein FtsY; Provisional	94.64
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.63
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.63
PRK06217	183	hypothetical protein; Validated	94.62
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.62
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.6
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.58
PRK04040	188	adenylate kinase; Provisional	94.57
PTZ00185	574	ATPase alpha subunit; Provisional	94.55
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.55
PRK06936	439	type III secretion system ATPase; Provisional	94.54
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.54
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.53
PRK14527	191	adenylate kinase; Provisional	94.52
PRK00625	173	shikimate kinase; Provisional	94.52
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.52
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.47
PTZ00035	337	Rad51 protein; Provisional	94.47
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.46
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.45
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.44
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	94.43
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.41
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.39
PRK11823	446	DNA repair protein RadA; Provisional	94.37
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	94.37
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.36
cd03246	173	ABCC_Protease_Secretion This family represents the	94.36
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.35
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.33
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	94.32
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.31
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.31
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.28
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.28
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.27
PRK05973	237	replicative DNA helicase; Provisional	94.24
PRK15453	290	phosphoribulokinase; Provisional	94.24
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.23
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	94.21
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	94.21
PRK00131	175	aroK shikimate kinase; Reviewed	94.21
PRK13765	637	ATP-dependent protease Lon; Provisional	94.2
PRK05439	311	pantothenate kinase; Provisional	94.19
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	94.16
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.11
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.11
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.1
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	94.06
PRK06851	367	hypothetical protein; Provisional	94.05
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.04
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.03
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.01
KOG0473	326	consensus Leucine-rich repeat protein [Function un	94.0
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	93.99
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	93.99
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	93.98
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.96
PRK00889	175	adenylylsulfate kinase; Provisional	93.95
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.94
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.94
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.93
CHL00059	485	atpA ATP synthase CF1 alpha subunit	93.92
PRK09099	441	type III secretion system ATPase; Provisional	93.91
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.9
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	93.9
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.88
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	93.86
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	93.86
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.84
PRK13947	171	shikimate kinase; Provisional	93.83
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	93.82
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	93.81
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.8
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	93.78
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	93.77
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	93.7
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.69
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	93.68
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	93.65
PRK13949	169	shikimate kinase; Provisional	93.64
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	93.63
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	93.62
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	93.61
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.6
PRK00279	215	adk adenylate kinase; Reviewed	93.59
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	93.58
PRK00300	205	gmk guanylate kinase; Provisional	93.54
PRK07132	299	DNA polymerase III subunit delta'; Validated	93.54
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	93.52
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	93.49
PRK14530	215	adenylate kinase; Provisional	93.49
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	93.48
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	93.47
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	93.46
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.46
PRK12339	197	2-phosphoglycerate kinase; Provisional	93.4
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	93.39
PRK06820	440	type III secretion system ATPase; Validated	93.38
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	93.38
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.33
PRK10416	318	signal recognition particle-docking protein FtsY;	93.31
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	93.31
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	93.29
) 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	93.26
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.26
CHL00060	494	atpB ATP synthase CF1 beta subunit	93.24
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.24
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	93.22
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	93.22
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	93.21
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	93.2
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.2
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	93.19
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	93.19
PRK03846	198	adenylylsulfate kinase; Provisional	93.15
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	93.14
PRK07594	433	type III secretion system ATPase SsaN; Validated	93.12
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	93.11
PLN02348	395	phosphoribulokinase	93.1
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.1
PRK05057	172	aroK shikimate kinase I; Reviewed	93.1
PRK13948	182	shikimate kinase; Provisional	93.06
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	93.04
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	93.04
PRK13975	196	thymidylate kinase; Provisional	93.01
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	93.01
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.01
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	92.99
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	92.97
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	92.95
PRK13946	184	shikimate kinase; Provisional	92.95
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	92.92

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.2e-98  Score=874.23  Aligned_cols=828  Identities=36%  Similarity=0.564  Sum_probs=677.6

Q ss_pred             chhh-hhhHHHHHhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHH
Q 038405            6 PILD-IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEVDG   84 (863)
Q Consensus         6 ~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~a~~~~~~~~~~~~~~wl~~~~~~~~~~~d   84 (863)
                      +.++ .++++++.+.+++..+.++++++..+++++..|+.++.++++       + + .....+..|...+++++|+++|
T Consensus         3 ~~~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a-------~-~-~~~~~~~~~~e~~~~~~~~~e~   73 (889)
T KOG4658|consen    3 ACVSFGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALEDLDA-------K-R-DDLERRVNWEEDVGDLVYLAED   73 (889)
T ss_pred             eEEEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHh-------h-c-chHHHHHHHHHHHHHHHHHHHH
Confidence            4466 667888899999999999999999999999999999766554       3 2 2345678999999999999999


Q ss_pred             HHHhhhhhhhh----------------cccCCccCCCccccchhhHHHHHHHHHHHHHHHhCCccccccccc-CCCCCCc
Q 038405           85 ILQKGCQEIEK----------------KCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTY-KLPRPPV  147 (863)
Q Consensus        85 ~ld~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~~~~-~~~~~~~  147 (863)
                      +++.|......                -|..+.|.++...-|.+++++..++++++.+..++ .|..+  +. ..+....
T Consensus        74 ~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~-~~~~~--~~~~~~~~~~  150 (889)
T KOG4658|consen   74 IIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKG-VFEVV--GESLDPREKV  150 (889)
T ss_pred             HHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhcccc-ceecc--cccccchhhc
Confidence            99998654321                13335556666777788899999999998888766 56555  32 1222223


Q ss_pred             cccCCccc--cchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          148 DGMATEKT--VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       148 ~~~~~~~~--vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      ..+|....  ||.+..++++++.|.+++..++||+||||+||||||++++|+...++++||.++||+||++++...++++
T Consensus       151 e~~~~~~~~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~  230 (889)
T KOG4658|consen  151 ETRPIQSESDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQT  230 (889)
T ss_pred             ccCCCCccccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHH
Confidence            33333222  9999999999999988888999999999999999999999999448999999999999999999999999


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh--------
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--------  297 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~--------  297 (863)
                      |++.++.....+.....++++..|.+.|++|||+|||||||+..+|+.++.++|...+||||++|||++.||        
T Consensus       231 Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~  310 (889)
T KOG4658|consen  231 ILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDY  310 (889)
T ss_pred             HHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCc
Confidence            999999876655566668899999999999999999999999999999999999999999999999999999        


Q ss_pred             ---cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhcC-CCcc
Q 038405          298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN-PSRF  373 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~~-~~~~  373 (863)
                         +++|+++|||+||+++++......++.++++|++|+++|+|+|||++++|+.|+.+.+..+|+++.+.+.+. ..+.
T Consensus       311 ~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~  390 (889)
T KOG4658|consen  311 PIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADF  390 (889)
T ss_pred             cccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCC
Confidence               889999999999999999886667777999999999999999999999999999999999999999999887 6666


Q ss_pred             CCCCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHHHHHHHHhccc
Q 038405          374 AGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLL  453 (863)
Q Consensus       374 ~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll  453 (863)
                      +++.+.+++++++||+.||+ ++|.||+|||+||+||.|+++.|+.+|+||||+.+...+..+++.|++|+.+|++++|+
T Consensus       391 ~~~~~~i~~iLklSyd~L~~-~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll  469 (889)
T KOG4658|consen  391 SGMEESILPILKLSYDNLPE-ELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLL  469 (889)
T ss_pred             CchhhhhHHhhhccHhhhhH-HHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHH
Confidence            67778999999999999996 59999999999999999999999999999999998767889999999999999999999


Q ss_pred             ccCC--CCCCeEEechHHHHHHHHhhh-----cCCcEEEecCCCC-CCCCccccccceEEEeccCCccccCCCC-CCCcc
Q 038405          454 ESGE--YSEDFVKMHDVVRDMALWLAS-----NESKILVQRSSDC-TNKSADSWREDFRLSLWGSSIEYLPETP-CPHLQ  524 (863)
Q Consensus       454 ~~~~--~~~~~~~mHdlv~d~~~~i~~-----~~~~~~~~~~~~~-~~~~~~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr  524 (863)
                      ....  ....+|+|||+|||||.++++     +++ .++..+... +.+....|..+|+++++++.+..++... +++|+
T Consensus       470 ~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~-~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~  548 (889)
T KOG4658|consen  470 IEERDEGRKETVKMHDVVREMALWIASDFGKQEEN-QIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLR  548 (889)
T ss_pred             hhcccccceeEEEeeHHHHHHHHHHhccccccccc-eEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccc
Confidence            9876  346899999999999999998     455 555554333 5777888899999999999999988888 99999


Q ss_pred             EEEeeccc--ccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCC
Q 038405          525 TLLVRFTV--LEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGM  602 (863)
Q Consensus       525 ~L~l~~~~--l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~  602 (863)
                      +|.+.+|.  +..++..+|..|+.|+||||++|..+..+|.+|++|.|||||+++++.|+.+|.++++|.+|.+|++..+
T Consensus       549 tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~  628 (889)
T KOG4658|consen  549 TLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVT  628 (889)
T ss_pred             eEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccc
Confidence            99999995  8889999999999999999999989999999999999999999999999999999999999999999999


Q ss_pred             CCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEE
Q 038405          603 RHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRL  682 (863)
Q Consensus       603 ~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L  682 (863)
                      ..+..+| ++...|++|++|.+....       .......+.+|..+. +|+.+.+...+...+..+.......+..+.+
T Consensus       629 ~~l~~~~-~i~~~L~~Lr~L~l~~s~-------~~~~~~~l~el~~Le-~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l  699 (889)
T KOG4658|consen  629 GRLESIP-GILLELQSLRVLRLPRSA-------LSNDKLLLKELENLE-HLENLSITISSVLLLEDLLGMTRLRSLLQSL  699 (889)
T ss_pred             ccccccc-chhhhcccccEEEeeccc-------cccchhhHHhhhccc-chhhheeecchhHhHhhhhhhHHHHHHhHhh
Confidence            8777775 447779999999998643       111344566666666 6666666655543334443333333444555


Q ss_pred             EecccCCccc-ccccccCCcceeEeccCccccc--CCCCC-CCC-CCCCCCEEEEecCCCCCCCcccccCCCcceEeecc
Q 038405          683 TIMHNLDSHS-IDLRNMMHLETLNIVECSLERV--DPTFN-GWT-NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN  757 (863)
Q Consensus       683 ~l~~~~~~~~-~~l~~~~~L~~L~l~~~~l~~~--~~~~~-~~~-~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~  757 (863)
                      .+.++..... ..+..+.+|+.|.+.+|.+.+.  .+... ... .|+++..+.+.+|.....+.|....|+|+.|++.+
T Consensus       700 ~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~f~~~L~~l~l~~  779 (889)
T KOG4658|consen  700 SIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLLFAPHLTSLSLVS  779 (889)
T ss_pred             hhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhhccCcccEEEEec
Confidence            5444333222 2378899999999999986543  22110 111 26788889999999999988888899999999999


Q ss_pred             CcchhhhhcccCC-ccccccCccCccccee-cccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCC---cc
Q 038405          758 CQALSEIIESAGS-SEVAESHNYFAYLMVI-DLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKN---SL  832 (863)
Q Consensus       758 ~~~l~~i~~~~~~-~~~~~~~~~~~~L~~L-~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~---~l  832 (863)
                      |..++.+++.... .........|.++..+ .+.+.+.+.++......+++|+.+.+..||++..+|........   ..
T Consensus       780 ~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~~~~l~~~~ve~~p~l~~~P~~~~~~i~~~~~~  859 (889)
T KOG4658|consen  780 CRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLSFLKLEELIVEECPKLGKLPLLSTLTIVGCEEK  859 (889)
T ss_pred             ccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecccCccchhheehhcCcccccCccccccceeccccc
Confidence            9988887654311 0010112345666666 57888888888888888899999999999999999986543322   23


Q ss_pred             eEEEchHhhhhcCcccchhhhhhh
Q 038405          833 VSIRGSAEWWEQLQWEDEATKHVF  856 (863)
Q Consensus       833 ~~i~~~~~~~~~l~w~~~~~~~~~  856 (863)
                      .....+.+|.+.++|+++..+..+
T Consensus       860 ~~~~~~~~~~~~v~~~~~~~~~~~  883 (889)
T KOG4658|consen  860 LKEYPDGEWLEGVYWEDELTKLRF  883 (889)
T ss_pred             eeecCCccceeeEEehhhhhhhhc
Confidence            444555689999999999988776

>PLN03210 Resistant to P

Probab=100.00  E-value=6.5e-63  Score=608.93  Aligned_cols=615  Identities=22%  Similarity=0.301  Sum_probs=427.4

Q ss_pred             ccccchhhHHHHHHHhhc--cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe---CCC-----------
Q 038405          153 EKTVGADSKLDEVWGCIE--DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV---SKE-----------  216 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~---~~~-----------  216 (863)
                      +.+|||++.++++..+|.  .+++++|+||||||+||||||+++|++.   ...|+..+|+..   +..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccc
Confidence            579999999999999883  4678999999999999999999999987   678998888742   111           


Q ss_pred             CC-HHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchh
Q 038405          217 GN-LEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       217 ~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                      ++ ...++.+++..+.....    .... ....+++.+++||+||||||||+..+|+.+.....+.++||+||||||++.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~----~~~~-~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKD----IKIY-HLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCC----cccC-CHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence            11 12344444444322210    0011 124577889999999999999999999988877777789999999999998


Q ss_pred             hh----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHH
Q 038405          296 VC----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDE  365 (863)
Q Consensus       296 v~----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~  365 (863)
                      ++          ++.++.++||+||+..||.... ..+++.+++++|+++|+|+|||++++|++|++ ++..+|+.++++
T Consensus       336 vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~-~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~  413 (1153)
T PLN03210        336 FLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS-PPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPR  413 (1153)
T ss_pred             HHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC-CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHH
Confidence            86          7889999999999999987642 33467899999999999999999999999998 588999999999


Q ss_pred             HhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHHHH
Q 038405          366 LQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIG  445 (863)
Q Consensus       366 l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~~~  445 (863)
                      ++....      ..|.++|++||+.|+++..|.||+++|+||.+..++.   +..|++.+.....           ..++
T Consensus       414 L~~~~~------~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~---v~~~l~~~~~~~~-----------~~l~  473 (1153)
T PLN03210        414 LRNGLD------GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVND---IKLLLANSDLDVN-----------IGLK  473 (1153)
T ss_pred             HHhCcc------HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHH---HHHHHHhcCCCch-----------hChH
Confidence            886432      4799999999999987458999999999999876643   6677777654321           2288


Q ss_pred             HHHHhcccccCCCCCCeEEechHHHHHHHHhhhcCC------cEEEecCC----------------------CC-----C
Q 038405          446 SLKLACLLESGEYSEDFVKMHDVVRDMALWLASNES------KILVQRSS----------------------DC-----T  492 (863)
Q Consensus       446 ~L~~~~ll~~~~~~~~~~~mHdlv~d~~~~i~~~~~------~~~~~~~~----------------------~~-----~  492 (863)
                      .|+++||++..   .+.+.|||++|+||+.+++++.      .++.....                      ..     .
T Consensus       474 ~L~~ksLi~~~---~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~  550 (1153)
T PLN03210        474 NLVDKSLIHVR---EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIH  550 (1153)
T ss_pred             HHHhcCCEEEc---CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeec
Confidence            99999999875   4579999999999999986431      22211100                      00     0


Q ss_pred             CCCccccc-------------------------------cceEEEeccCCccccCCCC-CCCccEEEeecccccccchhh
Q 038405          493 NKSADSWR-------------------------------EDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRF  540 (863)
Q Consensus       493 ~~~~~~~~-------------------------------~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~  540 (863)
                      ...+..+.                               +++.+.+.++.++.+|... +.+|+.|++.+|.+..++.. 
T Consensus       551 ~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~-  629 (1153)
T PLN03210        551 ENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDG-  629 (1153)
T ss_pred             HHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccccccccc-
Confidence            00011112                               2444455555555555554 66777777777766666655 


Q ss_pred             hhcCCCccEEeccCCcCccccchhhhcccccceeeccCC-CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCC
Q 038405          541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT-SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSL  619 (863)
Q Consensus       541 ~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~-~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L  619 (863)
                      +..+++|++|+|+++..+..+|. ++.+++|++|+|++| .+..+|.+++++++|+.|++++|..+..+|.. + ++++|
T Consensus       630 ~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL  706 (1153)
T PLN03210        630 VHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSL  706 (1153)
T ss_pred             cccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCC
Confidence            46677777777777756667764 677777888888777 66777777777888888888877777777765 3 67778


Q ss_pred             ceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcc------------------ccccccccE
Q 038405          620 KVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS------------------WKLCSCIKR  681 (863)
Q Consensus       620 ~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~------------------~~~~~~L~~  681 (863)
                      ++|++++|......+.   ...+++.|....|.+..++..+ .+..+..+...                  ...+++|+.
T Consensus       707 ~~L~Lsgc~~L~~~p~---~~~nL~~L~L~~n~i~~lP~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~  782 (1153)
T PLN03210        707 YRLNLSGCSRLKSFPD---ISTNISWLDLDETAIEEFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTR  782 (1153)
T ss_pred             CEEeCCCCCCcccccc---ccCCcCeeecCCCccccccccc-cccccccccccccchhhccccccccchhhhhccccchh
Confidence            8887777643221111   1234444444444444433221 11111111110                  112345666


Q ss_pred             EEecccCCccccc--ccccCCcceeEeccCc-ccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccC
Q 038405          682 LTIMHNLDSHSID--LRNMMHLETLNIVECS-LERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNC  758 (863)
Q Consensus       682 L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~-l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~  758 (863)
                      |++++|......+  ++++++|+.|++++|. +..++...    .+++|+.|++++|..+..+|.+  .++|+.|+|++|
T Consensus       783 L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~----~L~sL~~L~Ls~c~~L~~~p~~--~~nL~~L~Ls~n  856 (1153)
T PLN03210        783 LFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI----NLESLESLDLSGCSRLRTFPDI--STNISDLNLSRT  856 (1153)
T ss_pred             eeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCC----CccccCEEECCCCCcccccccc--ccccCEeECCCC
Confidence            6666665443332  5666677777776664 44443321    4666777777776665554432  356666666665


Q ss_pred             cchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCC
Q 038405          759 QALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFN  824 (863)
Q Consensus       759 ~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~  824 (863)
                      . ++.+|         .....+++|+.|++.+|++|+.++.....+++|+.+.+++|++|+.++..
T Consensus       857 ~-i~~iP---------~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~L~~~~l~  912 (1153)
T PLN03210        857 G-IEEVP---------WWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWN  912 (1153)
T ss_pred             C-CccCh---------HHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCcccccccCC
Confidence            4 33444         34567999999999999999999988888999999999999999987653

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=2.1e-44  Score=382.21  Aligned_cols=271  Identities=35%  Similarity=0.604  Sum_probs=223.8

Q ss_pred             hhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc
Q 038405          158 ADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY  235 (863)
Q Consensus       158 r~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  235 (863)
                      ||.++++|.+.|.+  ++.++|+|+||||+||||||++++++. ..+.+|+.++|+.++...+...++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78999999999987  789999999999999999999999985 358999999999999999999999999999988753


Q ss_pred             cc-cccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh-----------cccCCH
Q 038405          236 IW-NMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----------VECLSP  303 (863)
Q Consensus       236 ~~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~-----------l~~L~~  303 (863)
                      .. ...+.++....+.+.|+++++||||||||+...|+.+...++....||+||||||+..++           +++|+.
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            32 456778899999999999999999999999999999988888778899999999999876           889999


Q ss_pred             HHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhcCCCccCCCCccccch
Q 038405          304 EAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNLVFPI  383 (863)
Q Consensus       304 ~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~  383 (863)
                      +||++||.+.++.......+...+.+++|+++|+|+|||++++|++|+.+.+..+|+.+++++.....+..+....+..+
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999865533445667899999999999999999999999776678999999999887754443345679999


Q ss_pred             hhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCc
Q 038405          384 LRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDF  430 (863)
Q Consensus       384 l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~  430 (863)
                      +.+||+.||++ +|.||+|||+||+++.|+++.++++|+++||+...
T Consensus       240 l~~s~~~L~~~-~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  240 LELSYDSLPDE-LRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHSSHTC-CHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             ceechhcCCcc-HHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            99999999996 99999999999999999999999999999999764

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=99.85  E-value=1.6e-21  Score=242.24  Aligned_cols=109  Identities=26%  Similarity=0.293  Sum_probs=49.1

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCcc-ccchhhhcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L~  598 (863)
                      +++|++|++++|.+....+..+.++++|++|+|++|.....+|..++++.+|++|++++|.+. .+|..++++++|++|+
T Consensus       163 l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  242 (968)
T PLN00113        163 FSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLD  242 (968)
T ss_pred             CCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEE
Confidence            444555555444433222222444445555555444323344444444455555555444443 3444444455555555


Q ss_pred             cCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      +++|.....+|.. ++++++|++|++++|.+
T Consensus       243 L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l  272 (968)
T PLN00113        243 LVYNNLTGPIPSS-LGNLKNLQYLFLYQNKL  272 (968)
T ss_pred             CcCceeccccChh-HhCCCCCCEEECcCCee
Confidence            5444433334433 44445555555444443

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

Probab=99.85  E-value=4.2e-21  Score=238.43  Aligned_cols=302  Identities=21%  Similarity=0.192  Sum_probs=188.7

Q ss_pred             ccccceEEEeccCCccc-cCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeec
Q 038405          498 SWREDFRLSLWGSSIEY-LPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNL  576 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~-l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L  576 (863)
                      ....++++++.+|.+.. +|...+++|++|++++|.+....+..++.+++|++|+|++|.....+|..++++++|++|++
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  195 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTL  195 (968)
T ss_pred             cCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeec
Confidence            34577788887777653 44434778888888888776433344778888888888888445577888888888888888


Q ss_pred             cCCCcc-ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccccee
Q 038405          577 SNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYE  655 (863)
Q Consensus       577 ~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~  655 (863)
                      ++|.+. .+|..++++++|++|++++|.....+|.. ++++++|++|++++|.+....+........|+.|....|.+..
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~  274 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSG  274 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChh-HhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeec
Confidence            888765 56888888888888888888755567766 7888888888888877654333333233334443333322210


Q ss_pred             eEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEe
Q 038405          656 ISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIR  733 (863)
Q Consensus       656 l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~  733 (863)
                                  .++.....+++|+.|++++|......+  +..+++|+.|++++|.+.+..+.  .+..+++|+.|+++
T Consensus       275 ------------~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~--~~~~l~~L~~L~L~  340 (968)
T PLN00113        275 ------------PIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPV--ALTSLPRLQVLQLW  340 (968)
T ss_pred             ------------cCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCCh--hHhcCCCCCEEECc
Confidence                        111222345577778887776554333  66777788888877776554332  34467777888887


Q ss_pred             cCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCC---------------ccccccCccCcccceeccccccccccc
Q 038405          734 VCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGS---------------SEVAESHNYFAYLMVIDLDSLPSLKRI  797 (863)
Q Consensus       734 ~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~---------------~~~~~~~~~~~~L~~L~L~~~~~L~~l  797 (863)
                      +|.....+ ..++.+++|+.|++++|.....+|.....               .........+++|+.|.+.++.-...+
T Consensus       341 ~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~  420 (968)
T PLN00113        341 SNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGEL  420 (968)
T ss_pred             CCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeEC
Confidence            77655444 34667777777777777654444332110               001122345677777777665433333


Q ss_pred             ccCccCCCCccEEeecc
Q 038405          798 CHGTMPFPSLQNVSVTN  814 (863)
Q Consensus       798 ~~~~~~~~~L~~L~i~~  814 (863)
                      +.....+++|+.|++++
T Consensus       421 p~~~~~l~~L~~L~Ls~  437 (968)
T PLN00113        421 PSEFTKLPLVYFLDISN  437 (968)
T ss_pred             ChhHhcCCCCCEEECcC
Confidence            33333455555555543

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

Probab=99.85  E-value=2.6e-22  Score=210.51  Aligned_cols=305  Identities=19%  Similarity=0.230  Sum_probs=199.5

Q ss_pred             cccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceee
Q 038405          499 WREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLN  575 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~  575 (863)
                      ..++..+++..|.+..+|...  ..+|+.|+|.+|.+..+....+..++.||+||||.| .+.++|. ++..-.++++|+
T Consensus       101 l~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN-~is~i~~~sfp~~~ni~~L~  179 (873)
T KOG4194|consen  101 LPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRN-LISEIPKPSFPAKVNIKKLN  179 (873)
T ss_pred             CCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhc-hhhcccCCCCCCCCCceEEe
Confidence            346677788888888888876  667888888888888887777888888888888888 7777764 345557888888


Q ss_pred             ccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          576 LSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       576 L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      |++|.|+.+-.. |..|.+|-.|.|+.|. +..+|...|.+|++|+.|++..|.+.......+.+..+++.|..-.|.+.
T Consensus       180 La~N~It~l~~~~F~~lnsL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~  258 (873)
T KOG4194|consen  180 LASNRITTLETGHFDSLNSLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDIS  258 (873)
T ss_pred             eccccccccccccccccchheeeecccCc-ccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcc
Confidence            888888877543 7778888888888887 77888887888888888888888776655556667777777777777776


Q ss_pred             eeEEe-ecCchhhhhhhcccc-----------ccccccEEEecccCCcccc--cccccCCcceeEeccCcccccCCCCCC
Q 038405          655 EISIT-LGSASALFKINFSWK-----------LCSCIKRLTIMHNLDSHSI--DLRNMMHLETLNIVECSLERVDPTFNG  720 (863)
Q Consensus       655 ~l~~~-~~~~~~l~~l~~~~~-----------~~~~L~~L~l~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~~~~~~~~  720 (863)
                      +|.-. +..+..++.+....+           .++.|+.|+++.|.....-  .++-+++|++|++++|.++.+++.  .
T Consensus       259 kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~--s  336 (873)
T KOG4194|consen  259 KLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEG--S  336 (873)
T ss_pred             cccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChh--H
Confidence            66432 222222222222111           2345555666655543322  245556666666666666655443  3


Q ss_pred             CCCCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccc
Q 038405          721 WTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRIC  798 (863)
Q Consensus       721 ~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~  798 (863)
                      +..++.|+.|.|+.|. ++.+  ..+..+.+|+.|+|++|...-.|-+      -....+++++|+.|.|.+ .+|++++
T Consensus       337 f~~L~~Le~LnLs~Ns-i~~l~e~af~~lssL~~LdLr~N~ls~~IED------aa~~f~gl~~LrkL~l~g-Nqlk~I~  408 (873)
T KOG4194|consen  337 FRVLSQLEELNLSHNS-IDHLAEGAFVGLSSLHKLDLRSNELSWCIED------AAVAFNGLPSLRKLRLTG-NQLKSIP  408 (873)
T ss_pred             HHHHHHhhhhcccccc-hHHHHhhHHHHhhhhhhhcCcCCeEEEEEec------chhhhccchhhhheeecC-ceeeecc
Confidence            4455666666666653 2333  2345566777777776654322211      123456688888888877 4667666


Q ss_pred             c-CccCCCCccEEeeccC
Q 038405          799 H-GTMPFPSLQNVSVTNC  815 (863)
Q Consensus       799 ~-~~~~~~~L~~L~i~~C  815 (863)
                      . ....++.|+.|++.+.
T Consensus       409 krAfsgl~~LE~LdL~~N  426 (873)
T KOG4194|consen  409 KRAFSGLEALEHLDLGDN  426 (873)
T ss_pred             hhhhccCcccceecCCCC
Confidence            4 3344667777776653

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

Probab=99.84  E-value=1.1e-22  Score=214.38  Aligned_cols=307  Identities=22%  Similarity=0.244  Sum_probs=198.4

Q ss_pred             ccccceEEEeccCCccccCCCC--CCCccEEEeecccc--cccchhhhhcCCCccEEeccCCcCccccchhhhcccccce
Q 038405          498 SWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVL--EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRC  573 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l--~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~  573 (863)
                      ...++.++++.+|.+..+....  ++.||++.+..|.+  ..+|+.+| .+..|.+||||+| .+.+.|..+.+-.++-.
T Consensus        53 ~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShN-qL~EvP~~LE~AKn~iV  130 (1255)
T KOG0444|consen   53 RLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHN-QLREVPTNLEYAKNSIV  130 (1255)
T ss_pred             HHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccccceeeecchh-hhhhcchhhhhhcCcEE
Confidence            3446777788777777666554  77888888887754  45777744 6788888888888 78888888888888888


Q ss_pred             eeccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc
Q 038405          574 LNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ  652 (863)
Q Consensus       574 L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~  652 (863)
                      |+||+|+|..+|.. +-+|+.|-+|||++|. +..+|+. +..|.+|++|.+++|.+..+........++|+.|...+++
T Consensus       131 LNLS~N~IetIPn~lfinLtDLLfLDLS~Nr-Le~LPPQ-~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~Tq  208 (1255)
T KOG0444|consen  131 LNLSYNNIETIPNSLFINLTDLLFLDLSNNR-LEMLPPQ-IRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQ  208 (1255)
T ss_pred             EEcccCccccCCchHHHhhHhHhhhccccch-hhhcCHH-HHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhccccc
Confidence            88888888888876 5578888888888876 7778877 7788888888888877655443333334444444443321


Q ss_pred             ceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEE
Q 038405          653 IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS  731 (863)
Q Consensus       653 L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~  731 (863)
                                 ..+..++.+...+.+|..++++.|.....++ +-++++|+.|++++|.++.+..   ......+|++|+
T Consensus       209 -----------RTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~---~~~~W~~lEtLN  274 (1255)
T KOG0444|consen  209 -----------RTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNM---TEGEWENLETLN  274 (1255)
T ss_pred             -----------chhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeec---cHHHHhhhhhhc
Confidence                       1222233333344566666666665554443 5566677777777776665532   122345666666


Q ss_pred             EecCCCCCCCcccccCCCcceEeeccCcc-hhhhhcccCC--------------ccccccCccCcccceecccccccccc
Q 038405          732 IRVCPVIRDLTWIREAPNLQFLSLVNCQA-LSEIIESAGS--------------SEVAESHNYFAYLMVIDLDSLPSLKR  796 (863)
Q Consensus       732 L~~~~~~~~l~~l~~l~~L~~L~L~~~~~-l~~i~~~~~~--------------~~~~~~~~~~~~L~~L~L~~~~~L~~  796 (863)
                      ++.|....-+..+..|++|+.|.+.+|.. .+.||...|.              +..+.....++.|+.|.|.+ ..|-.
T Consensus       275 lSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVPEglcRC~kL~kL~L~~-NrLiT  353 (1255)
T KOG0444|consen  275 LSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVPEGLCRCVKLQKLKLDH-NRLIT  353 (1255)
T ss_pred             cccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccccCchhhhhhHHHHHhcccc-cceee
Confidence            66664433334456666666666655542 1223332211              11223456677888888754 56777


Q ss_pred             cccCccCCCCccEEeeccCCCCCCCCC
Q 038405          797 ICHGTMPFPSLQNVSVTNCPNLRELPF  823 (863)
Q Consensus       797 l~~~~~~~~~L~~L~i~~C~~L~~lp~  823 (863)
                      ++....-+|.|+.|++.+.|+|.--|-
T Consensus       354 LPeaIHlL~~l~vLDlreNpnLVMPPK  380 (1255)
T KOG0444|consen  354 LPEAIHLLPDLKVLDLRENPNLVMPPK  380 (1255)
T ss_pred             chhhhhhcCCcceeeccCCcCccCCCC
Confidence            787778889999999999999985543

>PLN03210 Resistant to P

Probab=99.79  E-value=1.9e-18  Score=214.62  Aligned_cols=298  Identities=23%  Similarity=0.290  Sum_probs=224.7

Q ss_pred             ccccceEEEeccCCccccCCCC--CCCccEEEeecc-cccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          498 SWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFT-VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      ...+++.|.+.++.+..++...  +++|+.|+++++ .+..+|.  +..+++|+.|+|++|..+..+|..++++++|++|
T Consensus       609 ~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L  686 (1153)
T PLN03210        609 RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDL  686 (1153)
T ss_pred             CccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCccccchhhhccCCCCEE
Confidence            4567889999999999887765  999999999987 5777775  7889999999999998899999999999999999


Q ss_pred             eccCC-CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcc--
Q 038405          575 NLSNT-SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGN--  651 (863)
Q Consensus       575 ~L~~~-~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n--  651 (863)
                      ++++| .+..+|..+ ++++|++|++++|..+..+|..    .++|++|++.+|.+..++...  ...+|..|.....  
T Consensus       687 ~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~----~~nL~~L~L~~n~i~~lP~~~--~l~~L~~L~l~~~~~  759 (1153)
T PLN03210        687 DMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDI----STNISWLDLDETAIEEFPSNL--RLENLDELILCEMKS  759 (1153)
T ss_pred             eCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccc----cCCcCeeecCCCccccccccc--cccccccccccccch
Confidence            99998 899999877 7999999999999888877752    468899999988765543211  2233333322210  


Q ss_pred             -------------------cceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCc-
Q 038405          652 -------------------QIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECS-  710 (863)
Q Consensus       652 -------------------~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~-  710 (863)
                                         .|+.+.  +.++..+..++.+...+++|+.|++++|......+ ..++++|+.|++++|. 
T Consensus       760 ~~l~~~~~~l~~~~~~~~~sL~~L~--Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~  837 (1153)
T PLN03210        760 EKLWERVQPLTPLMTMLSPSLTRLF--LSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSR  837 (1153)
T ss_pred             hhccccccccchhhhhccccchhee--CCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCc
Confidence                               122221  22223333445555678899999999987655543 3368899999999997 


Q ss_pred             ccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccc
Q 038405          711 LERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDS  790 (863)
Q Consensus       711 l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~  790 (863)
                      +..++.      ...+|+.|+|+++.....+.++..+++|+.|+|++|..++.++.         ....+++|+.+.+.+
T Consensus       838 L~~~p~------~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~---------~~~~L~~L~~L~l~~  902 (1153)
T PLN03210        838 LRTFPD------ISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSL---------NISKLKHLETVDFSD  902 (1153)
T ss_pred             cccccc------cccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCc---------ccccccCCCeeecCC
Confidence            444332      25789999999986555455789999999999999999988764         456789999999999


Q ss_pred             cccccccccCc-------------cCCCCccEEeeccCCCCCCC
Q 038405          791 LPSLKRICHGT-------------MPFPSLQNVSVTNCPNLREL  821 (863)
Q Consensus       791 ~~~L~~l~~~~-------------~~~~~L~~L~i~~C~~L~~l  821 (863)
                      |++|+.++...             ..+|+...+.+.+|.+|..-
T Consensus       903 C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~~  946 (1153)
T PLN03210        903 CGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQE  946 (1153)
T ss_pred             CcccccccCCCCchhhhhhcccccccCCchhccccccccCCCch
Confidence            99998765422             12455566788899888743

syringae 6; Provisional

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

Probab=99.78  E-value=5e-20  Score=193.57  Aligned_cols=325  Identities=23%  Similarity=0.284  Sum_probs=179.4

Q ss_pred             ceEEEeccCCccccCCC--C-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeecc
Q 038405          502 DFRLSLWGSSIEYLPET--P-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLS  577 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~--~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~  577 (863)
                      .+.|.+++|.+..+...  . +++|+.+.+.+|.++.+|.. .....+|+.|+|.+| .|.++ .+++..++.|+.||||
T Consensus        80 t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f-~~~sghl~~L~L~~N-~I~sv~se~L~~l~alrslDLS  157 (873)
T KOG4194|consen   80 TQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELTRIPRF-GHESGHLEKLDLRHN-LISSVTSEELSALPALRSLDLS  157 (873)
T ss_pred             eeeeeccccccccCcHHHHhcCCcceeeeeccchhhhcccc-cccccceeEEeeecc-ccccccHHHHHhHhhhhhhhhh
Confidence            34455555554443332  1 45555555555555555541 222334555555555 33332 2334455555666666


Q ss_pred             CCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceee
Q 038405          578 NTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI  656 (863)
Q Consensus       578 ~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l  656 (863)
                      .|.|.++|.. +..=.++++|+|++|. +..+..+.|.++.+|-+|.++.|+++.++...+.....|+.|..-.|.++..
T Consensus       158 rN~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~iriv  236 (873)
T KOG4194|consen  158 RNLISEIPKPSFPAKVNIKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIV  236 (873)
T ss_pred             hchhhcccCCCCCCCCCceEEeecccc-ccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeee
Confidence            6655555432 3333456666666655 4445444456666666666666666555555554455555555555555554


Q ss_pred             -EEeecCchhhhhhhcccc-----------ccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCC
Q 038405          657 -SITLGSASALFKINFSWK-----------LCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWT  722 (863)
Q Consensus       657 -~~~~~~~~~l~~l~~~~~-----------~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~  722 (863)
                       +..+..+.+++.+.+..+           .+.+++.|+|+.|.......  +-+++.|+.|++++|.+..+...  +++
T Consensus       237 e~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d--~Ws  314 (873)
T KOG4194|consen  237 EGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHID--SWS  314 (873)
T ss_pred             hhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecc--hhh
Confidence             445555555554443322           24466666666665543322  56677777777777776666443  445


Q ss_pred             CCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccccccccc-
Q 038405          723 NFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICH-  799 (863)
Q Consensus       723 ~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~-  799 (863)
                      ..++|+.|+|++|.. +.+  ..+..|..|+.|.|++|+ +..+-+        ..+.++.+|+.|+|++.. | +|+. 
T Consensus       315 ftqkL~~LdLs~N~i-~~l~~~sf~~L~~Le~LnLs~Ns-i~~l~e--------~af~~lssL~~LdLr~N~-l-s~~IE  382 (873)
T KOG4194|consen  315 FTQKLKELDLSSNRI-TRLDEGSFRVLSQLEELNLSHNS-IDHLAE--------GAFVGLSSLHKLDLRSNE-L-SWCIE  382 (873)
T ss_pred             hcccceeEecccccc-ccCChhHHHHHHHhhhhcccccc-hHHHHh--------hHHHHhhhhhhhcCcCCe-E-EEEEe
Confidence            667777777777743 333  235667777777777776 333322        344567778888877632 2 2222 


Q ss_pred             ----CccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEchHhhhhcCcccchhhhh
Q 038405          800 ----GTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQWEDEATKH  854 (863)
Q Consensus       800 ----~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~~~~~~~~l~w~~~~~~~  854 (863)
                          ..+.+|+|++|.+.+ .+|+.+|-........|          ++|..-+|++.+
T Consensus       383 Daa~~f~gl~~LrkL~l~g-Nqlk~I~krAfsgl~~L----------E~LdL~~NaiaS  430 (873)
T KOG4194|consen  383 DAAVAFNGLPSLRKLRLTG-NQLKSIPKRAFSGLEAL----------EHLDLGDNAIAS  430 (873)
T ss_pred             cchhhhccchhhhheeecC-ceeeecchhhhccCccc----------ceecCCCCccee
Confidence                234578888888887 57888876443333333          455555665544

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

Probab=99.77  E-value=1.4e-20  Score=198.63  Aligned_cols=269  Identities=23%  Similarity=0.280  Sum_probs=157.5

Q ss_pred             ccccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceee
Q 038405          498 SWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLN  575 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~  575 (863)
                      .+..+..+.++.|.+++.|...  .+++-+|+|++|.+..+|...|-++.-|-+||||+| .+..+|+.+..|.+|++|+
T Consensus       101 ~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ~RRL~~LqtL~  179 (1255)
T KOG0444|consen  101 RLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQIRRLSMLQTLK  179 (1255)
T ss_pred             ccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccc-hhhhcCHHHHHHhhhhhhh
Confidence            3344555555555555555544  455555555555555555555555555555555555 5555555555555555555


Q ss_pred             ccCCCcc-----ccchhhhcccCccEEecCCCCC-ccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhh
Q 038405          576 LSNTSIE-----ELPSEIMYLKNLKILLLDGMRH-FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL  649 (863)
Q Consensus       576 L~~~~i~-----~lP~~i~~L~~L~~L~l~~~~~-l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l  649 (863)
                      |++|.+.     .+|+    +++|++|.+++++. +..+|.+ +..|.+|..++++.|++...+..- -...+|..|...
T Consensus       180 Ls~NPL~hfQLrQLPs----mtsL~vLhms~TqRTl~N~Pts-ld~l~NL~dvDlS~N~Lp~vPecl-y~l~~LrrLNLS  253 (1255)
T KOG0444|consen  180 LSNNPLNHFQLRQLPS----MTSLSVLHMSNTQRTLDNIPTS-LDDLHNLRDVDLSENNLPIVPECL-YKLRNLRRLNLS  253 (1255)
T ss_pred             cCCChhhHHHHhcCcc----chhhhhhhcccccchhhcCCCc-hhhhhhhhhccccccCCCcchHHH-hhhhhhheeccC
Confidence            5555332     3332    44555555555432 3344544 455555555555554433221111 123344444444


Q ss_pred             cccceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCcc--cccCCCCCCCCCCCC
Q 038405          650 GNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSL--ERVDPTFNGWTNFHN  726 (863)
Q Consensus       650 ~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l--~~~~~~~~~~~~l~~  726 (863)
                      .|++++|.....             ...+|++|+++.|.....++ +..++.|+.|.+.+|.+  +++|.   +++.+.+
T Consensus       254 ~N~iteL~~~~~-------------~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPS---GIGKL~~  317 (1255)
T KOG0444|consen  254 GNKITELNMTEG-------------EWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPS---GIGKLIQ  317 (1255)
T ss_pred             cCceeeeeccHH-------------HHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCcc---chhhhhh
Confidence            444444433322             23367777777777665554 77888888888888874  44443   5678888


Q ss_pred             CCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccccccccc
Q 038405          727 LHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICH  799 (863)
Q Consensus       727 L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~  799 (863)
                      |+.+...+|..--.+..+..|+.|+.|.|+.|..+ .+|+         ...-++.|+.|++.+.|+|.-=+.
T Consensus       318 Levf~aanN~LElVPEglcRC~kL~kL~L~~NrLi-TLPe---------aIHlL~~l~vLDlreNpnLVMPPK  380 (1255)
T KOG0444|consen  318 LEVFHAANNKLELVPEGLCRCVKLQKLKLDHNRLI-TLPE---------AIHLLPDLKVLDLRENPNLVMPPK  380 (1255)
T ss_pred             hHHHHhhccccccCchhhhhhHHHHHhccccccee-echh---------hhhhcCCcceeeccCCcCccCCCC
Confidence            88888888854334456888999999999887743 4443         445688999999999988865544

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

Probab=99.72  E-value=5.1e-19  Score=178.26  Aligned_cols=210  Identities=23%  Similarity=0.237  Sum_probs=161.5

Q ss_pred             cccccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          497 DSWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       497 ~~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      .......++..+.|.+..+|...  ..+++.|+.++|.+..+|++ ++.+-.|..|+..+| .+.++|..++++..|..|
T Consensus        88 g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~-i~~~~~l~dl~~~~N-~i~slp~~~~~~~~l~~l  165 (565)
T KOG0472|consen   88 GELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELKELPDS-IGRLLDLEDLDATNN-QISSLPEDMVNLSKLSKL  165 (565)
T ss_pred             HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccceeecCch-HHHHhhhhhhhcccc-ccccCchHHHHHHHHHHh
Confidence            34445667777888888888776  77888888888888888887 667788888888888 888899999999999999


Q ss_pred             eccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          575 NLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       575 ~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      ++.+|+++.+|+..-+++.|++||...|. +..+|+. ++.|.+|..|++..|.+..++  .+.++..+.+|....|+++
T Consensus       166 ~~~~n~l~~l~~~~i~m~~L~~ld~~~N~-L~tlP~~-lg~l~~L~~LyL~~Nki~~lP--ef~gcs~L~Elh~g~N~i~  241 (565)
T KOG0472|consen  166 DLEGNKLKALPENHIAMKRLKHLDCNSNL-LETLPPE-LGGLESLELLYLRRNKIRFLP--EFPGCSLLKELHVGENQIE  241 (565)
T ss_pred             hccccchhhCCHHHHHHHHHHhcccchhh-hhcCChh-hcchhhhHHHHhhhcccccCC--CCCccHHHHHHHhcccHHH
Confidence            99999999998887779999999988876 8889988 899999999999998887665  4447788888888887777


Q ss_pred             eeEEeec-Cchh----------hhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCcccc
Q 038405          655 EISITLG-SASA----------LFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSLER  713 (863)
Q Consensus       655 ~l~~~~~-~~~~----------l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~  713 (863)
                      .++.... .+.+          ++.++.....+.+|.+|++++|.....+. ++++ +|+.|.+.||.+..
T Consensus       242 ~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNPlrT  311 (565)
T KOG0472|consen  242 MLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLALEGNPLRT  311 (565)
T ss_pred             hhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhhcCCchHH
Confidence            6654432 2222          23333344456678888888887765553 7777 88888888886443

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

Probab=99.63  E-value=1.5e-17  Score=184.64  Aligned_cols=100  Identities=27%  Similarity=0.313  Sum_probs=81.0

Q ss_pred             cceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          501 EDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      ++.++.+++|.+..+|...  .++|+.|.++.|.+..+|.. ..++.+|++|.|.+| .+..+|.++..+.+|++|++++
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s-~~~~~~l~~lnL~~n-~l~~lP~~~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSS-CSNMRNLQYLNLKNN-RLQSLPASISELKNLQYLDLSF  123 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchh-hhhhhcchhheeccc-hhhcCchhHHhhhcccccccch
Confidence            4778888888888888876  78899999999988888855 788899999999988 8889999999999999999999


Q ss_pred             CCccccchhhhcccCccEEecCCC
Q 038405          579 TSIEELPSEIMYLKNLKILLLDGM  602 (863)
Q Consensus       579 ~~i~~lP~~i~~L~~L~~L~l~~~  602 (863)
                      |.+..+|..+..+..+..+..++|
T Consensus       124 N~f~~~Pl~i~~lt~~~~~~~s~N  147 (1081)
T KOG0618|consen  124 NHFGPIPLVIEVLTAEEELAASNN  147 (1081)
T ss_pred             hccCCCchhHHhhhHHHHHhhhcc
Confidence            988887766655555555444444

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

Probab=99.62  E-value=3.4e-18  Score=172.33  Aligned_cols=235  Identities=23%  Similarity=0.286  Sum_probs=116.8

Q ss_pred             ceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          502 DFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      +..+.+++|...++|...  ...+..|+++.|++..+|+. +..+..|+.|+.+++ ...++|++|+.+..|..|+..+|
T Consensus        70 l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~-i~s~~~l~~l~~s~n-~~~el~~~i~~~~~l~dl~~~~N  147 (565)
T KOG0472|consen   70 LTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQ-IGSLISLVKLDCSSN-ELKELPDSIGRLLDLEDLDATNN  147 (565)
T ss_pred             eeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHH-Hhhhhhhhhhhcccc-ceeecCchHHHHhhhhhhhcccc
Confidence            334444445444444443  44444555555555555544 344445555555555 44455555555555555555555


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      +|.++|.+++++.+|..|++.+|. +..+|+..+. |+.|++|+...|-+..+++ ...+..++.-|....|.++.+| .
T Consensus       148 ~i~slp~~~~~~~~l~~l~~~~n~-l~~l~~~~i~-m~~L~~ld~~~N~L~tlP~-~lg~l~~L~~LyL~~Nki~~lP-e  223 (565)
T KOG0472|consen  148 QISSLPEDMVNLSKLSKLDLEGNK-LKALPENHIA-MKRLKHLDCNSNLLETLPP-ELGGLESLELLYLRRNKIRFLP-E  223 (565)
T ss_pred             ccccCchHHHHHHHHHHhhccccc-hhhCCHHHHH-HHHHHhcccchhhhhcCCh-hhcchhhhHHHHhhhcccccCC-C
Confidence            555555555555555555555544 4444444222 5555555544443332221 1123333333444444444444 3


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV  737 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~  737 (863)
                      +.+++.             |..|+++.|.....+.  ...+++|..|++..|.+++.|..   ..-+.+|.+|++++|..
T Consensus       224 f~gcs~-------------L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde---~clLrsL~rLDlSNN~i  287 (565)
T KOG0472|consen  224 FPGCSL-------------LKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDE---ICLLRSLERLDLSNNDI  287 (565)
T ss_pred             CCccHH-------------HHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchH---HHHhhhhhhhcccCCcc
Confidence            333333             3333333333322221  44566777777777777666543   22456677777777755


Q ss_pred             CCCCcccccCCCcceEeeccCc
Q 038405          738 IRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       738 ~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      ..-++.++++ .|+.|-+.||+
T Consensus       288 s~Lp~sLgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  288 SSLPYSLGNL-HLKFLALEGNP  308 (565)
T ss_pred             ccCCcccccc-eeeehhhcCCc
Confidence            4444566776 67777777776

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.59  E-value=7.8e-15  Score=168.97  Aligned_cols=110  Identities=25%  Similarity=0.306  Sum_probs=51.6

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCcccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEEL  584 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~l  584 (863)
                      +.+..+.+..+|....++|+.|.+.+|.++.+|.    .+++|++|++++| .++.+|..   ..+|++|++++|.+..+
T Consensus       206 LdLs~~~LtsLP~~l~~~L~~L~L~~N~Lt~LP~----lp~~Lk~LdLs~N-~LtsLP~l---p~sL~~L~Ls~N~L~~L  277 (788)
T PRK15387        206 LNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPA----LPPELRTLEVSGN-QLTSLPVL---PPGLLELSIFSNPLTHL  277 (788)
T ss_pred             EEcCCCCCCcCCcchhcCCCEEEccCCcCCCCCC----CCCCCcEEEecCC-ccCcccCc---ccccceeeccCCchhhh
Confidence            4444444444444434455555555555554443    1345555555555 44444432   23445555555555554


Q ss_pred             chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          585 PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       585 P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      |...   .+|+.|++++|. +..+|..    +++|+.|++++|.+.
T Consensus       278 p~lp---~~L~~L~Ls~N~-Lt~LP~~----p~~L~~LdLS~N~L~  315 (788)
T PRK15387        278 PALP---SGLCKLWIFGNQ-LTSLPVL----PPGLQELSVSDNQLA  315 (788)
T ss_pred             hhch---hhcCEEECcCCc-ccccccc----ccccceeECCCCccc
Confidence            4321   344455555554 4444431    234555555555443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.56  E-value=1.4e-14  Score=168.12  Aligned_cols=246  Identities=18%  Similarity=0.179  Sum_probs=164.4

Q ss_pred             ceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      ...+.+.++.+..+|....++|+.|++++|.++.+|...+   .+|++|++++| .++.+|..+.  .+|+.|+|++|.+
T Consensus       180 ~~~L~L~~~~LtsLP~~Ip~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls~N~L  253 (754)
T PRK15370        180 KTELRLKILGLTTIPACIPEQITTLILDNNELKSLPENLQ---GNIKTLYANSN-QLTSIPATLP--DTIQEMELSINRI  253 (754)
T ss_pred             ceEEEeCCCCcCcCCcccccCCcEEEecCCCCCcCChhhc---cCCCEEECCCC-ccccCChhhh--ccccEEECcCCcc
Confidence            4567777778888887667788999999998888887643   58899999988 7888887664  4788999999988


Q ss_pred             cccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeec
Q 038405          582 EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLG  661 (863)
Q Consensus       582 ~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~  661 (863)
                      ..+|..+.  .+|+.|++++|. +..+|.. +.  ++|++|++++|.+..++..   ...++..|....|.+..++..  
T Consensus       254 ~~LP~~l~--s~L~~L~Ls~N~-L~~LP~~-l~--~sL~~L~Ls~N~Lt~LP~~---lp~sL~~L~Ls~N~Lt~LP~~--  322 (754)
T PRK15370        254 TELPERLP--SALQSLDLFHNK-ISCLPEN-LP--EELRYLSVYDNSIRTLPAH---LPSGITHLNVQSNSLTALPET--  322 (754)
T ss_pred             CcCChhHh--CCCCEEECcCCc-cCccccc-cC--CCCcEEECCCCccccCccc---chhhHHHHHhcCCccccCCcc--
Confidence            88888764  578999998876 6778876 32  5788999988877654321   123566666666666544321  


Q ss_pred             CchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC
Q 038405          662 SASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL  741 (863)
Q Consensus       662 ~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l  741 (863)
                                   ..++|+.|++++|.....+. .-+++|+.|++++|.+..++..     ..++|+.|+|++|.....+
T Consensus       323 -------------l~~sL~~L~Ls~N~Lt~LP~-~l~~sL~~L~Ls~N~L~~LP~~-----lp~~L~~LdLs~N~Lt~LP  383 (754)
T PRK15370        323 -------------LPPGLKTLEAGENALTSLPA-SLPPELQVLDVSKNQITVLPET-----LPPTITTLDVSRNALTNLP  383 (754)
T ss_pred             -------------ccccceeccccCCccccCCh-hhcCcccEEECCCCCCCcCChh-----hcCCcCEEECCCCcCCCCC
Confidence                         12367777777776554332 1126788888888887765432     2367888888888544333


Q ss_pred             cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          742 TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       742 ~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      +.+.  ++|+.|++++|. +..+|...     ......++++..+.+.+.
T Consensus       384 ~~l~--~sL~~LdLs~N~-L~~LP~sl-----~~~~~~~~~l~~L~L~~N  425 (754)
T PRK15370        384 ENLP--AALQIMQASRNN-LVRLPESL-----PHFRGEGPQPTRIIVEYN  425 (754)
T ss_pred             HhHH--HHHHHHhhccCC-cccCchhH-----HHHhhcCCCccEEEeeCC
Confidence            3332  368888888876 34544311     111223466666666553

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

Probab=99.54  E-value=6.7e-16  Score=171.75  Aligned_cols=265  Identities=22%  Similarity=0.244  Sum_probs=193.5

Q ss_pred             cceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          501 EDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      ..+++....|.+..+...+ ..+|.+++++.|.+..+| ++++.+.+|..|+..+| .+..+|..+....+|++|.+.+|
T Consensus       220 ~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp-~wi~~~~nle~l~~n~N-~l~~lp~ri~~~~~L~~l~~~~n  297 (1081)
T KOG0618|consen  220 SLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLP-EWIGACANLEALNANHN-RLVALPLRISRITSLVSLSAAYN  297 (1081)
T ss_pred             chheeeeccCcceeeccccccccceeeecchhhhhcch-HHHHhcccceEecccch-hHHhhHHHHhhhhhHHHHHhhhh
Confidence            5666777777666544444 678888888888888888 67888889999998888 77888888888888999999888


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCC-CceeeccCcchhhhccCCCCccccchhhhhhcccceeeEE
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS-LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI  658 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~-L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~  658 (863)
                      .++.+|+....+.+|++|+|..|. +..+|...+..+.. |+.|+.+.|.+.............+++|..-+|+|..-.+
T Consensus       298 el~yip~~le~~~sL~tLdL~~N~-L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~  376 (1081)
T KOG0618|consen  298 ELEYIPPFLEGLKSLRTLDLQSNN-LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCF  376 (1081)
T ss_pred             hhhhCCCcccccceeeeeeehhcc-ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccch
Confidence            888888888888899999998887 77888776655554 6777666665544443333345567777777766642211


Q ss_pred             eecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCC
Q 038405          659 TLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP  736 (863)
Q Consensus       659 ~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~  736 (863)
                      .            ......+|+.|++++|.....++  +.+++.|++|+++||.++.++.   ....+..|+.|...+|.
T Consensus       377 p------------~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~Lp~---tva~~~~L~tL~ahsN~  441 (1081)
T KOG0618|consen  377 P------------VLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTLPD---TVANLGRLHTLRAHSNQ  441 (1081)
T ss_pred             h------------hhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhhhH---HHHhhhhhHHHhhcCCc
Confidence            1            11234589999999997765554  8888999999999999888863   34578889999888884


Q ss_pred             CCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccc
Q 038405          737 VIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPS  793 (863)
Q Consensus       737 ~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~  793 (863)
                       +..+|.+.++|.|+.++++.|.. ..+.-       ..... -|+|++|+|++.+.
T Consensus       442 -l~~fPe~~~l~qL~~lDlS~N~L-~~~~l-------~~~~p-~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  442 -LLSFPELAQLPQLKVLDLSCNNL-SEVTL-------PEALP-SPNLKYLDLSGNTR  488 (1081)
T ss_pred             -eeechhhhhcCcceEEecccchh-hhhhh-------hhhCC-CcccceeeccCCcc
Confidence             44556888999999999987763 33211       01111 17899999988665

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

Probab=99.49  E-value=5.2e-15  Score=149.56  Aligned_cols=250  Identities=20%  Similarity=0.289  Sum_probs=165.7

Q ss_pred             EeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcc-ccchhhhcccccceeeccC-CCccc
Q 038405          506 SLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLRCLNLSN-TSIEE  583 (863)
Q Consensus       506 ~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~-~lp~~i~~L~~L~~L~L~~-~~i~~  583 (863)
                      .-.+..+.++|....+....+.|..|.|+.+|++.|+.+++||.||||+| .|+ .-|..|.+|..|-.|-+.+ |+|+.
T Consensus        52 dCr~~GL~eVP~~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N-~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~  130 (498)
T KOG4237|consen   52 DCRGKGLTEVPANLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKN-NISFIAPDAFKGLASLLSLVLYGNNKITD  130 (498)
T ss_pred             EccCCCcccCcccCCCcceEEEeccCCcccCChhhccchhhhceeccccc-chhhcChHhhhhhHhhhHHHhhcCCchhh
Confidence            33455677788887888899999999999999999999999999999999 665 4588999999988887666 79999


Q ss_pred             cchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc------ce--
Q 038405          584 LPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ------IY--  654 (863)
Q Consensus       584 lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~------L~--  654 (863)
                      +|.. |+.|..|+.|.+.-|. +..++.+++..|++|..|.++.|.+..+....+.....++.+..-.|.      +.  
T Consensus       131 l~k~~F~gL~slqrLllNan~-i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wl  209 (498)
T KOG4237|consen  131 LPKGAFGGLSSLQRLLLNANH-INCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWL  209 (498)
T ss_pred             hhhhHhhhHHHHHHHhcChhh-hcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchh
Confidence            9987 8899999999998887 778888889999999999999887655544344444555555444332      11  


Q ss_pred             -----eeEEeecCch-----hhh-----hhhccccccccccEE--Ee-ccc-CCccccc--ccccCCcceeEeccCcccc
Q 038405          655 -----EISITLGSAS-----ALF-----KINFSWKLCSCIKRL--TI-MHN-LDSHSID--LRNMMHLETLNIVECSLER  713 (863)
Q Consensus       655 -----~l~~~~~~~~-----~l~-----~l~~~~~~~~~L~~L--~l-~~~-~~~~~~~--l~~~~~L~~L~l~~~~l~~  713 (863)
                           ..++.+....     .+.     +.... ....+++.+  .+ +.| .+...+.  |..+++|++|++++|.++.
T Consensus       210 a~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~-kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~  288 (498)
T KOG4237|consen  210 ADDLAMNPIETSGARCVSPYRLYYKRINQEDAR-KFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITR  288 (498)
T ss_pred             hhHHhhchhhcccceecchHHHHHHHhcccchh-hhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccch
Confidence                 1111111100     000     00000 000011111  11 111 1111111  7778888888888888777


Q ss_pred             cCCCCCCCCCCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccCcch
Q 038405          714 VDPTFNGWTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQAL  761 (863)
Q Consensus       714 ~~~~~~~~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l  761 (863)
                      +...  .+.....|++|.|..|. +..+  ..+..+..|+.|+|.+|+..
T Consensus       289 i~~~--aFe~~a~l~eL~L~~N~-l~~v~~~~f~~ls~L~tL~L~~N~it  335 (498)
T KOG4237|consen  289 IEDG--AFEGAAELQELYLTRNK-LEFVSSGMFQGLSGLKTLSLYDNQIT  335 (498)
T ss_pred             hhhh--hhcchhhhhhhhcCcch-HHHHHHHhhhccccceeeeecCCeeE
Confidence            7443  35567777888887774 3333  34667778888888877743

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.48  E-value=3.1e-14  Score=165.28  Aligned_cols=225  Identities=19%  Similarity=0.219  Sum_probs=171.7

Q ss_pred             ccceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          500 REDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      ..++.+.+.+|.++.+|...+++|++|++++|.++.+|..+   ..+|+.|+|++| .+..+|..+.  .+|++|++++|
T Consensus       199 ~~L~~L~Ls~N~LtsLP~~l~~nL~~L~Ls~N~LtsLP~~l---~~~L~~L~Ls~N-~L~~LP~~l~--s~L~~L~Ls~N  272 (754)
T PRK15370        199 EQITTLILDNNELKSLPENLQGNIKTLYANSNQLTSIPATL---PDTIQEMELSIN-RITELPERLP--SALQSLDLFHN  272 (754)
T ss_pred             cCCcEEEecCCCCCcCChhhccCCCEEECCCCccccCChhh---hccccEEECcCC-ccCcCChhHh--CCCCEEECcCC
Confidence            46889999999999998877889999999999999998763   357999999999 7889998775  58999999999


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      ++..+|..+.  .+|++|++++|. +..+|.. +.  ++|++|++++|.+..++..   ...+|+.|....|.+..++..
T Consensus       273 ~L~~LP~~l~--~sL~~L~Ls~N~-Lt~LP~~-lp--~sL~~L~Ls~N~Lt~LP~~---l~~sL~~L~Ls~N~Lt~LP~~  343 (754)
T PRK15370        273 KISCLPENLP--EELRYLSVYDNS-IRTLPAH-LP--SGITHLNVQSNSLTALPET---LPPGLKTLEAGENALTSLPAS  343 (754)
T ss_pred             ccCccccccC--CCCcEEECCCCc-cccCccc-ch--hhHHHHHhcCCccccCCcc---ccccceeccccCCccccCChh
Confidence            9999998764  589999999997 7788865 32  5789999999887654322   124556665555555433311


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR  739 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~  739 (863)
                                     .+++|+.|++++|.....+. .-.++|+.|+|++|.+..++..     ...+|+.|++++|....
T Consensus       344 ---------------l~~sL~~L~Ls~N~L~~LP~-~lp~~L~~LdLs~N~Lt~LP~~-----l~~sL~~LdLs~N~L~~  402 (754)
T PRK15370        344 ---------------LPPELQVLDVSKNQITVLPE-TLPPTITTLDVSRNALTNLPEN-----LPAALQIMQASRNNLVR  402 (754)
T ss_pred             ---------------hcCcccEEECCCCCCCcCCh-hhcCCcCEEECCCCcCCCCCHh-----HHHHHHHHhhccCCccc
Confidence                           13589999999997654332 2236899999999998877553     23579999999996543


Q ss_pred             CCc----ccccCCCcceEeeccCcc
Q 038405          740 DLT----WIREAPNLQFLSLVNCQA  760 (863)
Q Consensus       740 ~l~----~l~~l~~L~~L~L~~~~~  760 (863)
                      .+.    ....+|++..|+|.+|+.
T Consensus       403 LP~sl~~~~~~~~~l~~L~L~~Npl  427 (754)
T PRK15370        403 LPESLPHFRGEGPQPTRIIVEYNPF  427 (754)
T ss_pred             CchhHHHHhhcCCCccEEEeeCCCc
Confidence            322    234568999999999874

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.48  E-value=3.3e-13  Score=155.68  Aligned_cols=234  Identities=22%  Similarity=0.172  Sum_probs=147.0

Q ss_pred             ccceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          500 REDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      ..++.|.+.+|.++.+|.. +++|++|++++|.++.+|..    .++|+.|++++| .+..+|...   .+|+.|++++|
T Consensus       222 ~~L~~L~L~~N~Lt~LP~l-p~~Lk~LdLs~N~LtsLP~l----p~sL~~L~Ls~N-~L~~Lp~lp---~~L~~L~Ls~N  292 (788)
T PRK15387        222 AHITTLVIPDNNLTSLPAL-PPELRTLEVSGNQLTSLPVL----PPGLLELSIFSN-PLTHLPALP---SGLCKLWIFGN  292 (788)
T ss_pred             cCCCEEEccCCcCCCCCCC-CCCCcEEEecCCccCcccCc----ccccceeeccCC-chhhhhhch---hhcCEEECcCC
Confidence            3678899999999888753 68899999999988888752    468889999988 777777633   56778888888


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      +++.+|..   +++|+.|++++|. +..+|.. .   .+|+.|++.+|.+..++.    ...+|+.|....|+|..++..
T Consensus       293 ~Lt~LP~~---p~~L~~LdLS~N~-L~~Lp~l-p---~~L~~L~Ls~N~L~~LP~----lp~~Lq~LdLS~N~Ls~LP~l  360 (788)
T PRK15387        293 QLTSLPVL---PPGLQELSVSDNQ-LASLPAL-P---SELCKLWAYNNQLTSLPT----LPSGLQELSVSDNQLASLPTL  360 (788)
T ss_pred             cccccccc---ccccceeECCCCc-cccCCCC-c---ccccccccccCccccccc----cccccceEecCCCccCCCCCC
Confidence            88888863   4678888888886 6666642 2   356677777776654331    113455555555555443311


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR  739 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~  739 (863)
                                      ..+|..|++++|.....+.+  +.+|+.|++++|.+..++..      .++|+.|++++|.. .
T Consensus       361 ----------------p~~L~~L~Ls~N~L~~LP~l--~~~L~~LdLs~N~Lt~LP~l------~s~L~~LdLS~N~L-s  415 (788)
T PRK15387        361 ----------------PSELYKLWAYNNRLTSLPAL--PSGLKELIVSGNRLTSLPVL------PSELKELMVSGNRL-T  415 (788)
T ss_pred             ----------------CcccceehhhccccccCccc--ccccceEEecCCcccCCCCc------ccCCCEEEccCCcC-C
Confidence                            12455555555554432221  24566777777666654431      34666777777643 3


Q ss_pred             CCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          740 DLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       740 ~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      .+|.+  +.+|+.|++++|. +..+|.         ....+++|+.|+|+++
T Consensus       416 sIP~l--~~~L~~L~Ls~Nq-Lt~LP~---------sl~~L~~L~~LdLs~N  455 (788)
T PRK15387        416 SLPML--PSGLLSLSVYRNQ-LTRLPE---------SLIHLSSETTVNLEGN  455 (788)
T ss_pred             CCCcc--hhhhhhhhhccCc-ccccCh---------HHhhccCCCeEECCCC
Confidence            33322  2456666666665 344443         2344666666666654

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.43  E-value=1.9e-13  Score=161.24  Aligned_cols=298  Identities=20%  Similarity=0.266  Sum_probs=190.4

Q ss_pred             cceEEEeccCC--ccccCCC--C-CCCccEEEeecc-cccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          501 EDFRLSLWGSS--IEYLPET--P-CPHLQTLLVRFT-VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       501 ~~~~l~l~~~~--~~~l~~~--~-~~~Lr~L~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      +++.+-+..|.  +..++..  . ++.||+|++++| .+..+|.. ++.+-+||||+++++ .+..+|.++++|..|.||
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 KLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDT-GISHLPSGLGNLKKLIYL  623 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCC-CccccchHHHHHHhhhee
Confidence            57777777775  5555552  3 899999999988 78889877 899999999999999 899999999999999999


Q ss_pred             eccCC-CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccc
Q 038405          575 NLSNT-SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI  653 (863)
Q Consensus       575 ~L~~~-~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L  653 (863)
                      |+..+ .+..+|.....|++||+|.+.... .. .....++.+.+|++|....+.....        ..++.+.... .|
T Consensus       624 nl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~-~~-~~~~~l~el~~Le~L~~ls~~~~s~--------~~~e~l~~~~-~L  692 (889)
T KOG4658|consen  624 NLEVTGRLESIPGILLELQSLRVLRLPRSA-LS-NDKLLLKELENLEHLENLSITISSV--------LLLEDLLGMT-RL  692 (889)
T ss_pred             ccccccccccccchhhhcccccEEEeeccc-cc-cchhhHHhhhcccchhhheeecchh--------HhHhhhhhhH-HH
Confidence            99998 455556666679999999997654 11 1111244445555554433221110        0111111111 11


Q ss_pred             eeeEEeec-CchhhhhhhccccccccccEEEecccCCccccc-------ccc-cCCcceeEeccCc-ccccCCCCCCCCC
Q 038405          654 YEISITLG-SASALFKINFSWKLCSCIKRLTIMHNLDSHSID-------LRN-MMHLETLNIVECS-LERVDPTFNGWTN  723 (863)
Q Consensus       654 ~~l~~~~~-~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-------l~~-~~~L~~L~l~~~~-l~~~~~~~~~~~~  723 (863)
                      ......+. ..........+...+.+|+.|.+.+|...+...       ... ++++..+.+.+|. ...+.|..    .
T Consensus       693 ~~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~----f  768 (889)
T KOG4658|consen  693 RSLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLL----F  768 (889)
T ss_pred             HHHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhh----c
Confidence            11111111 012233344455667799999999998764321       111 4466666666665 44444432    5


Q ss_pred             CCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCc-
Q 038405          724 FHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGT-  801 (863)
Q Consensus       724 l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~-  801 (863)
                      .++|+.|.+..|+...++ |....+..++.+.+..+.. ....       ...+.++|+++..+.+.... |..|..+. 
T Consensus       769 ~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~-~~l~-------~~~~l~~l~~i~~~~l~~~~-l~~~~ve~~  839 (889)
T KOG4658|consen  769 APHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKL-EGLR-------MLCSLGGLPQLYWLPLSFLK-LEELIVEEC  839 (889)
T ss_pred             cCcccEEEEecccccccCCCHHHHhhhcccEEeccccc-ccce-------eeecCCCCceeEecccCccc-hhheehhcC
Confidence            789999999999988876 5556666666544443332 1110       12345566666666665533 66665554 


Q ss_pred             ---cCCCCccEEeeccC-CCCCCCCCC
Q 038405          802 ---MPFPSLQNVSVTNC-PNLRELPFN  824 (863)
Q Consensus       802 ---~~~~~L~~L~i~~C-~~L~~lp~~  824 (863)
                         ..+|.+.++.+.+| +++..+|..
T Consensus       840 p~l~~~P~~~~~~i~~~~~~~~~~~~~  866 (889)
T KOG4658|consen  840 PKLGKLPLLSTLTIVGCEEKLKEYPDG  866 (889)
T ss_pred             cccccCccccccceeccccceeecCCc
Confidence               56789999999997 889888864

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

Probab=99.42  E-value=7.6e-15  Score=131.30  Aligned_cols=163  Identities=25%  Similarity=0.418  Sum_probs=119.2

Q ss_pred             CCccccccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccccc
Q 038405          494 KSADSWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINL  571 (863)
Q Consensus       494 ~~~~~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L  571 (863)
                      +.....+.+.++.+++|.+..+|...  +.+|++|++++|.++.+|.+ ++.++.||.|+++-| .+..+|..||.++.|
T Consensus        27 ~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~-issl~klr~lnvgmn-rl~~lprgfgs~p~l  104 (264)
T KOG0617|consen   27 PGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTS-ISSLPKLRILNVGMN-RLNILPRGFGSFPAL  104 (264)
T ss_pred             ccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChh-hhhchhhhheecchh-hhhcCccccCCCchh
Confidence            34445567778888888888777766  78888888888888888876 678888888888877 777888888888888


Q ss_pred             ceeeccCCCcc--ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhh
Q 038405          572 RCLNLSNTSIE--ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL  649 (863)
Q Consensus       572 ~~L~L~~~~i~--~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l  649 (863)
                      +.|||.+|++.  .+|-.+..++-|+.|++++|. ...+|++ +++|++||.|.+..|.+..++.. ......+++|..-
T Consensus       105 evldltynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~d-vg~lt~lqil~lrdndll~lpke-ig~lt~lrelhiq  181 (264)
T KOG0617|consen  105 EVLDLTYNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPD-VGKLTNLQILSLRDNDLLSLPKE-IGDLTRLRELHIQ  181 (264)
T ss_pred             hhhhccccccccccCCcchhHHHHHHHHHhcCCC-cccCChh-hhhhcceeEEeeccCchhhCcHH-HHHHHHHHHHhcc
Confidence            88888888665  578777778888888888876 6777777 78888888888877766544322 1244556666666


Q ss_pred             cccceeeEEeec
Q 038405          650 GNQIYEISITLG  661 (863)
Q Consensus       650 ~n~L~~l~~~~~  661 (863)
                      +|.|..++..+.
T Consensus       182 gnrl~vlppel~  193 (264)
T KOG0617|consen  182 GNRLTVLPPELA  193 (264)
T ss_pred             cceeeecChhhh
Confidence            666666554433

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

Probab=99.35  E-value=3e-14  Score=127.52  Aligned_cols=162  Identities=22%  Similarity=0.296  Sum_probs=95.8

Q ss_pred             cCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccC
Q 038405          515 LPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN  593 (863)
Q Consensus       515 l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~  593 (863)
                      ++... +++++.|.++.|++..+|+. +..+.+|++|++++| .++++|.+++.|+.|+.|++.-|++..+|.+++.++-
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl~~vppn-ia~l~nlevln~~nn-qie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~  103 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKLTVVPPN-IAELKNLEVLNLSNN-QIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPA  103 (264)
T ss_pred             cccccchhhhhhhhcccCceeecCCc-HHHhhhhhhhhcccc-hhhhcChhhhhchhhhheecchhhhhcCccccCCCch
Confidence            34333 56666667777766666666 566667777777666 6667777777777777777766666666777777777


Q ss_pred             ccEEecCCCCCc-cccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcc
Q 038405          594 LKILLLDGMRHF-HLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS  672 (863)
Q Consensus       594 L~~L~l~~~~~l-~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~  672 (863)
                      |+.||+.+|+.- ..+|.+ |-.|+.|+-|+++.|.+.-+                        +             ..
T Consensus       104 levldltynnl~e~~lpgn-ff~m~tlralyl~dndfe~l------------------------p-------------~d  145 (264)
T KOG0617|consen  104 LEVLDLTYNNLNENSLPGN-FFYMTTLRALYLGDNDFEIL------------------------P-------------PD  145 (264)
T ss_pred             hhhhhccccccccccCCcc-hhHHHHHHHHHhcCCCcccC------------------------C-------------hh
Confidence            777776665422 234544 44555555555554432211                        1             11


Q ss_pred             ccccccccEEEecccCCcccc-cccccCCcceeEeccCcccccCC
Q 038405          673 WKLCSCIKRLTIMHNLDSHSI-DLRNMMHLETLNIVECSLERVDP  716 (863)
Q Consensus       673 ~~~~~~L~~L~l~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~~~~  716 (863)
                      ...+++|+.|.+..|.....+ +++.++.|++|+|.+|.++-++|
T Consensus       146 vg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vlpp  190 (264)
T KOG0617|consen  146 VGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVLPP  190 (264)
T ss_pred             hhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeecCh
Confidence            122335556666665544433 26666677777777776665554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.33  E-value=6.8e-11  Score=146.58  Aligned_cols=286  Identities=14%  Similarity=0.165  Sum_probs=177.1

Q ss_pred             cCCccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHH
Q 038405          150 MATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRK  228 (863)
Q Consensus       150 ~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~  228 (863)
                      +.+..+|-|+.-.+.+-.   ....+++.|.|++|.||||++.++....    +   .++|+++... .+...+...++.
T Consensus        11 ~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~----~---~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841         11 VRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAGK----N---NLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             CCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHhC----C---CeEEEecCcccCCHHHHHHHHHH
Confidence            334567778766555532   2467899999999999999999987543    2   5899999644 455666666666


Q ss_pred             HcCCCccc----c-------cccChhhHHHHHHHHhc--cCcEEEEEccccccc--ccc-cccccCCCCCCCeEEEEeec
Q 038405          229 KLDISDYI----W-------NMKGEYDRAVEILISLR--RKKFVLLLDDVWERL--DLS-KTGVSLSDCQNGSKIVFTTR  292 (863)
Q Consensus       229 ~l~~~~~~----~-------~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~--~~~-~~~~~l~~~~~gs~iivTTr  292 (863)
                      .+......    .       ...+.......+...+.  +.+++|||||+....  ... .+...+.....+.++|||||
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR  160 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSR  160 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeC
Confidence            66311100    0       00122223333444443  579999999997542  112 22222233345678889999


Q ss_pred             chhhh-------------cc----cCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCC
Q 038405          293 SEEVC-------------VE----CLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRS  355 (863)
Q Consensus       293 ~~~v~-------------l~----~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~  355 (863)
                      ...-.             +.    +|+.+|+.++|....+...      ..+...+|.+.|+|.|+++..++..+.....
T Consensus       161 ~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~------~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~  234 (903)
T PRK04841        161 NLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI------EAAESSRLCDDVEGWATALQLIALSARQNNS  234 (903)
T ss_pred             CCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC------CHHHHHHHHHHhCChHHHHHHHHHHHhhCCC
Confidence            84211             33    8899999999987665321      2567789999999999999999887754321


Q ss_pred             hhhHHHHHHHHhcCCCccCCCCccccchhhc-ccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchh
Q 038405          356 PREWQYVIDELQRNPSRFAGMGNLVFPILRF-SYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSIT  434 (863)
Q Consensus       356 ~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~-sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~  434 (863)
                      ..  ......+...      ....+...+.- .++.||++ .+..+...|+++   .++.+ +..     .+..      
T Consensus       235 ~~--~~~~~~~~~~------~~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~~~---~~~~~-l~~-----~l~~------  290 (903)
T PRK04841        235 SL--HDSARRLAGI------NASHLSDYLVEEVLDNVDLE-TRHFLLRCSVLR---SMNDA-LIV-----RVTG------  290 (903)
T ss_pred             ch--hhhhHhhcCC------CchhHHHHHHHHHHhcCCHH-HHHHHHHhcccc---cCCHH-HHH-----HHcC------
Confidence            00  0111111100      01123333332 37899996 999999999986   33332 221     1111      


Q ss_pred             HHhhhHHHHHHHHHHhccccc-CCCCCCeEEechHHHHHHHHhh
Q 038405          435 TARNQGEYIIGSLKLACLLES-GEYSEDFVKMHDVVRDMALWLA  477 (863)
Q Consensus       435 ~~~~~~~~~~~~L~~~~ll~~-~~~~~~~~~mHdlv~d~~~~i~  477 (863)
                        .+.+...+++|.+.+++.. .+....+|+.|++++++.+...
T Consensus       291 --~~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        291 --EENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             --CCcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence              2234667999999998653 3333468999999999998664

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

Probab=99.28  E-value=8.8e-13  Score=133.69  Aligned_cols=256  Identities=19%  Similarity=0.220  Sum_probs=183.0

Q ss_pred             cceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeec
Q 038405          501 EDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNL  576 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L  576 (863)
                      ....+.+..|.|+.+|...   +++||.|+|++|.|+.+.++.|.+++.|-.|-+.++..|+.+|. .|++|..|+.|.+
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLll  147 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLL  147 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhc
Confidence            5667889999999999886   88999999999999999999999999998888877549999997 5789999999999


Q ss_pred             cCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhh------------hccCCCCccccc
Q 038405          577 SNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE------------LHRMPPNQTTIL  643 (863)
Q Consensus       577 ~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~------------~~~~~~~~~~~l  643 (863)
                      .-|++..++.. +..|++|..|.+.+|. +..++.+.+..+.+++++++..|.+..            ..+..+++..-.
T Consensus       148 Nan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~  226 (498)
T KOG4237|consen  148 NANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCV  226 (498)
T ss_pred             ChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceec
Confidence            99999988655 8899999999999987 888888779999999999887655210            011111111111


Q ss_pred             hhhhhhcccceeeEEe--ecCchhhhhh------------hccccccccccEEEecccCCccccc--ccccCCcceeEec
Q 038405          644 DELECLGNQIYEISIT--LGSASALFKI------------NFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIV  707 (863)
Q Consensus       644 ~~L~~l~n~L~~l~~~--~~~~~~l~~l------------~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~  707 (863)
                      .-.....+.+..+...  .+..+++..-            ...+..+++|+.|++++|......+  |.+...+++|.+.
T Consensus       227 ~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~  306 (498)
T KOG4237|consen  227 SPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLT  306 (498)
T ss_pred             chHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcC
Confidence            1111111111111110  0000011000            0114567899999999998876654  8889999999999


Q ss_pred             cCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCc
Q 038405          708 ECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       708 ~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~  759 (863)
                      .|.+..+...  .+..+++|+.|+|.+|.....- ..+..+.+|..|.|-.|+
T Consensus       307 ~N~l~~v~~~--~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  307 RNKLEFVSSG--MFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNP  357 (498)
T ss_pred             cchHHHHHHH--hhhccccceeeeecCCeeEEEecccccccceeeeeehccCc
Confidence            9998877443  4667899999999999654332 346778888888886554

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

Probab=99.16  E-value=4.2e-09  Score=110.44  Aligned_cols=172  Identities=14%  Similarity=0.123  Sum_probs=109.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ....++.|+|++|+||||+++.+++... . ..+ ..+|+ +....+..+++..|...++.+..   ..+.......+.+
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~-~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~  113 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLD-Q-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELED  113 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcC-C-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHH
Confidence            4456899999999999999999998862 1 211 22333 33345778889999998887642   2222333333333


Q ss_pred             H-----hccCcEEEEEccccccc--ccccccccC---CCCCCCeEEEEeecch--------hh-------h----cccCC
Q 038405          252 S-----LRRKKFVLLLDDVWERL--DLSKTGVSL---SDCQNGSKIVFTTRSE--------EV-------C----VECLS  302 (863)
Q Consensus       252 ~-----l~~k~~LlVlDdv~~~~--~~~~~~~~l---~~~~~gs~iivTTr~~--------~v-------~----l~~L~  302 (863)
                      .     ..+++.+||+||++...  .++.+....   .+......|++|....        ..       +    +.+++
T Consensus       114 ~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~  193 (269)
T TIGR03015       114 FLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLD  193 (269)
T ss_pred             HHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCC
Confidence            2     25788999999998743  334332211   1122233455555422        10       0    78999


Q ss_pred             HHHHHHHHhHhhCccccCC-CCChHHHHHHHHHHcCCChHHHHHHHHHH
Q 038405          303 PEAALDLFRYKVGEDVFNS-HPEIPTLAQAVVGECKGLPLALITIARAM  350 (863)
Q Consensus       303 ~~~a~~Lf~~~~~~~~~~~-~~~~~~~~~~i~~~c~glPLai~~~~~~l  350 (863)
                      .+|..+++...+....... ..-..+..+.|++.++|.|..|..++..+
T Consensus       194 ~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       194 REETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999999887764222111 12236889999999999999999888876

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.09  E-value=4.9e-09  Score=117.69  Aligned_cols=289  Identities=17%  Similarity=0.137  Sum_probs=185.6

Q ss_pred             ccccCCccccchhhHHHHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHH
Q 038405          147 VDGMATEKTVGADSKLDEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQE  224 (863)
Q Consensus       147 ~~~~~~~~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~  224 (863)
                      +.|.++...|-|..-.    +.|.. .+.|++.|..++|.|||||+.+.....    ..=..+.|.+.++. -+...+..
T Consensus        13 ~~P~~~~~~v~R~rL~----~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~   84 (894)
T COG2909          13 VRPVRPDNYVVRPRLL----DRLRRANDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLS   84 (894)
T ss_pred             CCCCCcccccccHHHH----HHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHH
Confidence            3444455667776544    44544 478999999999999999999987633    23347899998875 45777777


Q ss_pred             HHHHHcCCCccc-----------ccccChhhHHHHHHHHhc--cCcEEEEEcccccc---cccccccccCCCCCCCeEEE
Q 038405          225 VIRKKLDISDYI-----------WNMKGEYDRAVEILISLR--RKKFVLLLDDVWER---LDLSKTGVSLSDCQNGSKIV  288 (863)
Q Consensus       225 ~i~~~l~~~~~~-----------~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~---~~~~~~~~~l~~~~~gs~ii  288 (863)
                      .++.+++.-...           ....+...+...+...+.  .++..+||||-.-.   .--..+...+.....+-..|
T Consensus        85 yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lv  164 (894)
T COG2909          85 YLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLV  164 (894)
T ss_pred             HHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEE
Confidence            777777521110           011233344455555444  36899999996532   11222222333445678999


Q ss_pred             Eeecchhhh-----------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHh
Q 038405          289 FTTRSEEVC-----------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMS  351 (863)
Q Consensus       289 vTTr~~~v~-----------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~  351 (863)
                      ||||...-.                 .=.++.+|+-++|....+..      -.....+.+.+...|-+-|+..++=.++
T Consensus       165 v~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~------Ld~~~~~~L~~~teGW~~al~L~aLa~~  238 (894)
T COG2909         165 VTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP------LDAADLKALYDRTEGWAAALQLIALALR  238 (894)
T ss_pred             EEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC------CChHHHHHHHhhcccHHHHHHHHHHHcc
Confidence            999998654                 22478999999998765332      2256788999999999999999888777


Q ss_pred             CCCChhhHHHHHHHHhcCCCccCCCCccccc-hhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCc
Q 038405          352 SRRSPREWQYVIDELQRNPSRFAGMGNLVFP-ILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDF  430 (863)
Q Consensus       352 ~~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~-~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~  430 (863)
                      ...+.+.--..+.          +..+.+.. ...--++.||++ +|..++-||+++.-.    +.|+.           
T Consensus       239 ~~~~~~q~~~~Ls----------G~~~~l~dYL~eeVld~Lp~~-l~~FLl~~svl~~f~----~eL~~-----------  292 (894)
T COG2909         239 NNTSAEQSLRGLS----------GAASHLSDYLVEEVLDRLPPE-LRDFLLQTSVLSRFN----DELCN-----------  292 (894)
T ss_pred             CCCcHHHHhhhcc----------chHHHHHHHHHHHHHhcCCHH-HHHHHHHHHhHHHhh----HHHHH-----------
Confidence            4333322211111          00011111 111235789997 999999999986421    23332           


Q ss_pred             cchhHHhhhHHHHHHHHHHhcccc-cCCCCCCeEEechHHHHHHHHhh
Q 038405          431 RSITTARNQGEYIIGSLKLACLLE-SGEYSEDFVKMHDVVRDMALWLA  477 (863)
Q Consensus       431 ~~~~~~~~~~~~~~~~L~~~~ll~-~~~~~~~~~~mHdlv~d~~~~i~  477 (863)
                        ....++.+..++++|..++++- +-++...+|+.|.++.||.+.--
T Consensus       293 --~Ltg~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~  338 (894)
T COG2909         293 --ALTGEENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRL  338 (894)
T ss_pred             --HHhcCCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhh
Confidence              2233556778899999999865 44455889999999999987544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.08  E-value=4e-09  Score=117.15  Aligned_cols=282  Identities=12%  Similarity=0.058  Sum_probs=161.9

Q ss_pred             ccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      +.++||++++++|...+.+    .....+.|+|++|+|||++++.++++.. .....-..+++.+....+...++..|+.
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~-~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE-EIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            5689999999999998843    3446688999999999999999998872 2222235677777777778889999999


Q ss_pred             HcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccc------ccccccccCCCCCCCeE--EEEeecchhhh-
Q 038405          229 KLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL------DLSKTGVSLSDCQNGSK--IVFTTRSEEVC-  297 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~~~~~l~~~~~gs~--iivTTr~~~v~-  297 (863)
                      ++..........+..+....+.+.++  +++.+||||+++...      .+..+.... ....+++  +|.++....+. 
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~-~~~~~~~v~vI~i~~~~~~~~  187 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAH-EEYPGARIGVIGISSDLTFLY  187 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhh-hccCCCeEEEEEEECCcchhh
Confidence            88652211123345666677777775  456899999998642      122222211 1122333  56665544322 


Q ss_pred             ----------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHH----cCCChHHHHHHHHHH--h--CC
Q 038405          298 ----------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGE----CKGLPLALITIARAM--S--SR  353 (863)
Q Consensus       298 ----------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~----c~glPLai~~~~~~l--~--~~  353 (863)
                                      +.+++.++..+++...+.... ....-..+..+.|++.    .|..+.|+..+-.+.  +  ..
T Consensus       188 ~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~-~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        188 ILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGF-YPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhc-ccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence                            778899999999887763210 0001112334444444    455777777764432  1  11


Q ss_pred             ---CChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhc-CCC-CCCccchHHHHHH--HHhcCC
Q 038405          354 ---RSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCS-LFP-EENNIRKDELIDL--WIGEGF  426 (863)
Q Consensus       354 ---~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~-~Fp-~~~~i~~~~Li~~--wiaeg~  426 (863)
                         -+.+..+.+.+.+..             ....-.+..||.+ .|..+..++ ... ....+....+...  .+++.+
T Consensus       267 ~~~I~~~~v~~a~~~~~~-------------~~~~~~~~~L~~~-~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~  332 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSEI-------------VHLSEVLRTLPLH-EKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEEL  332 (394)
T ss_pred             CCCcCHHHHHHHHHHHHH-------------HHHHHHHhcCCHH-HHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHc
Confidence               245566666554421             1223356788875 343333222 221 1123444444422  222211


Q ss_pred             CCCccchhHHhhhHHHHHHHHHHhccccc
Q 038405          427 LSDFRSITTARNQGEYIIGSLKLACLLES  455 (863)
Q Consensus       427 i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  455 (863)
                      -...    .......+++..|...+++..
T Consensus       333 ~~~~----~~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        333 GYEP----RTHTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             CCCc----CcHHHHHHHHHHHHhcCCeEE
Confidence            1000    012345667888888888875

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

Probab=99.07  E-value=5.4e-11  Score=128.48  Aligned_cols=106  Identities=22%  Similarity=0.159  Sum_probs=50.3

Q ss_pred             CCCccEEEeeccccc-----ccchhhhhcCCCccEEeccCCcCcc-------ccchhhhcccccceeeccCCCcc-ccch
Q 038405          520 CPHLQTLLVRFTVLE-----IFPHRFFESMGALKVLDLSYNLDLT-------QLPAEMGALINLRCLNLSNTSIE-ELPS  586 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~-----~l~~~~~~~l~~L~~L~Ls~~~~i~-------~lp~~i~~L~~L~~L~L~~~~i~-~lP~  586 (863)
                      +++|+.|.+.++.+.     .++. .+...+.|+.|+++++ .+.       .++..+..+++|++|++++|.+. ..+.
T Consensus        22 l~~L~~l~l~~~~l~~~~~~~i~~-~l~~~~~l~~l~l~~~-~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~   99 (319)
T cd00116          22 LLCLQVLRLEGNTLGEEAAKALAS-ALRPQPSLKELCLSLN-ETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCG   99 (319)
T ss_pred             HhhccEEeecCCCCcHHHHHHHHH-HHhhCCCceEEecccc-ccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHH
Confidence            344556666655442     1222 1334455666666555 222       12334455556666666666554 2333


Q ss_pred             hhhcccC---ccEEecCCCCCcc----ccchhhhcCC-CCCceeeccCcc
Q 038405          587 EIMYLKN---LKILLLDGMRHFH----LIPARVFSSL-LSLKVFSLFSTE  628 (863)
Q Consensus       587 ~i~~L~~---L~~L~l~~~~~l~----~lp~~~i~~L-~~L~~L~l~~~~  628 (863)
                      .+..+.+   |++|++++|....    .+... +..+ ++|+.|++.+|.
T Consensus       100 ~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~-l~~~~~~L~~L~L~~n~  148 (319)
T cd00116         100 VLESLLRSSSLQELKLNNNGLGDRGLRLLAKG-LKDLPPALEKLVLGRNR  148 (319)
T ss_pred             HHHHHhccCcccEEEeeCCccchHHHHHHHHH-HHhCCCCceEEEcCCCc
Confidence            3443333   6666666654221    11111 3344 566666666554

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).

>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=99.05  E-value=7.3e-10  Score=113.64  Aligned_cols=184  Identities=20%  Similarity=0.221  Sum_probs=99.5

Q ss_pred             ccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHH--------
Q 038405          155 TVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVI--------  226 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i--------  226 (863)
                      |+||++++++|.+++..+..+.+.|+|+.|+|||+|++.+.+...  ...+ .++|+...+...... ...+        
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~--~~~~-~~~y~~~~~~~~~~~-~~~~~~~~~~~~   76 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELK--EKGY-KVVYIDFLEESNESS-LRSFIEETSLAD   76 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT----EE-CCCHHCCTTBSHHHH-HHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhh--hcCC-cEEEEecccchhhhH-HHHHHHHHHHHH
Confidence            689999999999999887788999999999999999999998761  1111 344554444432222 2222        


Q ss_pred             ------HHHcCCCcc----cccccChhhHHHHHHHHhc--cCcEEEEEccccccc-ccc-------cccc---cCCCCCC
Q 038405          227 ------RKKLDISDY----IWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL-DLS-------KTGV---SLSDCQN  283 (863)
Q Consensus       227 ------~~~l~~~~~----~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-~~~-------~~~~---~l~~~~~  283 (863)
                            ...+.....    .............+.+.+.  +++.+||+||+.... ...       .+..   ......+
T Consensus        77 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (234)
T PF01637_consen   77 ELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQN  156 (234)
T ss_dssp             HCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TT
T ss_pred             HHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCC
Confidence                  111111000    0001122334444545554  356999999997655 111       1111   1122334


Q ss_pred             CeEEEEeecchhhh------------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          284 GSKIVFTTRSEEVC------------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       284 gs~iivTTr~~~v~------------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      .+.|+++|. ....                  +++++.+++++++...+... ... +.-.+..++|...+||.|..|..
T Consensus       157 ~~~v~~~S~-~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  157 VSIVITGSS-DSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEEESS-HHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHH
T ss_pred             ceEEEECCc-hHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            444444443 2221                  89999999999999865432 111 22366779999999999987754

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

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

Probab=99.04  E-value=8.7e-11  Score=126.83  Aligned_cols=102  Identities=23%  Similarity=0.132  Sum_probs=72.0

Q ss_pred             EEeeccccc-ccchhhhhcCCCccEEeccCCcCc-----cccchhhhcccccceeeccCCCccc-------cchhhhccc
Q 038405          526 LLVRFTVLE-IFPHRFFESMGALKVLDLSYNLDL-----TQLPAEMGALINLRCLNLSNTSIEE-------LPSEIMYLK  592 (863)
Q Consensus       526 L~l~~~~l~-~l~~~~~~~l~~L~~L~Ls~~~~i-----~~lp~~i~~L~~L~~L~L~~~~i~~-------lP~~i~~L~  592 (863)
                      |+|.++.+. .--...+..+..|++|+++++ .+     ..++..+...++|++|+++++.+..       ++..+.+++
T Consensus         3 l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~   81 (319)
T cd00116           3 LSLKGELLKTERATELLPKLLCLQVLRLEGN-TLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGC   81 (319)
T ss_pred             cccccCcccccchHHHHHHHhhccEEeecCC-CCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcC
Confidence            445455433 112244677888999999999 55     3466677788889999999987663       345677889


Q ss_pred             CccEEecCCCCCccccchhhhcCCCC---CceeeccCcch
Q 038405          593 NLKILLLDGMRHFHLIPARVFSSLLS---LKVFSLFSTEL  629 (863)
Q Consensus       593 ~L~~L~l~~~~~l~~lp~~~i~~L~~---L~~L~l~~~~~  629 (863)
                      +|+.|++++|......+.. +..+.+   |++|++++|.+
T Consensus        82 ~L~~L~l~~~~~~~~~~~~-~~~l~~~~~L~~L~ls~~~~  120 (319)
T cd00116          82 GLQELDLSDNALGPDGCGV-LESLLRSSSLQELKLNNNGL  120 (319)
T ss_pred             ceeEEEccCCCCChhHHHH-HHHHhccCcccEEEeeCCcc
Confidence            9999999999844334433 555555   99999998764

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).

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

Probab=99.03  E-value=2e-11  Score=129.53  Aligned_cols=212  Identities=22%  Similarity=0.270  Sum_probs=123.3

Q ss_pred             EEeccCCccccCCCC----CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCC
Q 038405          505 LSLWGSSIEYLPETP----CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       505 l~l~~~~~~~l~~~~----~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~  580 (863)
                      +.+++..++.+|...    +..-...+++.|.+..+|.. ++.|-.|..|.|+.| .+..+|..+++|..|.||||+.|.
T Consensus        55 l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrNR~~elp~~-~~~f~~Le~liLy~n-~~r~ip~~i~~L~~lt~l~ls~Nq  132 (722)
T KOG0532|consen   55 LLLSGRRLKEFPRGAASYDLTDTVFADLSRNRFSELPEE-ACAFVSLESLILYHN-CIRTIPEAICNLEALTFLDLSSNQ  132 (722)
T ss_pred             cccccchhhcCCCccccccccchhhhhccccccccCchH-HHHHHHHHHHHHHhc-cceecchhhhhhhHHHHhhhccch
Confidence            344444444444332    33344556666666666655 455556666666666 566666666666666666666666


Q ss_pred             ccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEee
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL  660 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~  660 (863)
                      +..+|..++.|+ |+.|.+++|+ +..+|.. ++.+..|.+|+.+.|.+..+...- ....++..|....|++..++..+
T Consensus       133 lS~lp~~lC~lp-Lkvli~sNNk-l~~lp~~-ig~~~tl~~ld~s~nei~slpsql-~~l~slr~l~vrRn~l~~lp~El  208 (722)
T KOG0532|consen  133 LSHLPDGLCDLP-LKVLIVSNNK-LTSLPEE-IGLLPTLAHLDVSKNEIQSLPSQL-GYLTSLRDLNVRRNHLEDLPEEL  208 (722)
T ss_pred             hhcCChhhhcCc-ceeEEEecCc-cccCCcc-cccchhHHHhhhhhhhhhhchHHh-hhHHHHHHHHHhhhhhhhCCHHH
Confidence            666666666655 6666666655 6666666 556666666666665544332211 13334444444444444443322


Q ss_pred             cCchhhhhhhccccccccccEEEecccCCcccc-cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCC
Q 038405          661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSI-DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP  736 (863)
Q Consensus       661 ~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~  736 (863)
                      +.              -.|..|++++|.....+ .|..|+.|++|-|.+|.+...+.....-+...=.++|+..-|.
T Consensus       209 ~~--------------LpLi~lDfScNkis~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~kGkVHIFKyL~~qA~q  271 (722)
T KOG0532|consen  209 CS--------------LPLIRLDFSCNKISYLPVDFRKMRHLQVLQLENNPLQSPPAQICEKGKVHIFKYLSTQACQ  271 (722)
T ss_pred             hC--------------CceeeeecccCceeecchhhhhhhhheeeeeccCCCCCChHHHHhccceeeeeeecchhcc
Confidence            21              14677888888776555 3889999999999999887764432222233445677777773

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.01  E-value=9.1e-08  Score=105.20  Aligned_cols=285  Identities=13%  Similarity=0.136  Sum_probs=161.0

Q ss_pred             ccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCC---CEEEEEEeCCCCCHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF---DLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~~~~~~~~~~~~  225 (863)
                      +.++||++++++|..++.+    .....+.|+|++|+|||++++.+++.........   -..+|+......+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            4689999999999999853    3456799999999999999999998752111111   14567777777777889999


Q ss_pred             HHHHcC---CCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccc-c----cccccccC-CCCC--CCeEEEEeec
Q 038405          226 IRKKLD---ISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL-D----LSKTGVSL-SDCQ--NGSKIVFTTR  292 (863)
Q Consensus       226 i~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-~----~~~~~~~l-~~~~--~gs~iivTTr  292 (863)
                      |++++.   .... ....+..+....+.+.+.  +++++||||+++... .    +..+.... ....  ....+|.+|+
T Consensus        95 i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n  173 (365)
T TIGR02928        95 LANQLRGSGEEVP-TTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISN  173 (365)
T ss_pred             HHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEEC
Confidence            999883   2211 012234455566666663  568899999998652 1    11221110 1111  2234455554


Q ss_pred             chhhh-----------------cccCCHHHHHHHHhHhhCc--cccCCCCChHHHHHHHHHHcCCChH-HHHHHHHHH--
Q 038405          293 SEEVC-----------------VECLSPEAALDLFRYKVGE--DVFNSHPEIPTLAQAVVGECKGLPL-ALITIARAM--  350 (863)
Q Consensus       293 ~~~v~-----------------l~~L~~~~a~~Lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~l--  350 (863)
                      .....                 +.+++.++..+++..++..  .....+++..+....++....|.|- |+..+-...  
T Consensus       174 ~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~  253 (365)
T TIGR02928       174 DLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEI  253 (365)
T ss_pred             CcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            33221                 7788999999999887631  1111222333445556667778874 433332221  


Q ss_pred             h--C---CCChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCC--CCCCccchHHHHHHH--
Q 038405          351 S--S---RRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLF--PEENNIRKDELIDLW--  421 (863)
Q Consensus       351 ~--~---~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~F--p~~~~i~~~~Li~~w--  421 (863)
                      .  .   .-+.+..+.+.+.+..             ....-++..||.+ .|..+..++..  .++..+....+...+  
T Consensus       254 a~~~~~~~it~~~v~~a~~~~~~-------------~~~~~~i~~l~~~-~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~  319 (365)
T TIGR02928       254 AEREGAERVTEDHVEKAQEKIEK-------------DRLLELIRGLPTH-SKLVLLAIANLAANDEDPFRTGEVYEVYKE  319 (365)
T ss_pred             HHHcCCCCCCHHHHHHHHHHHHH-------------HHHHHHHHcCCHH-HHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Confidence            1  1   1234444444443321             1223355678875 55444433311  133445555555533  


Q ss_pred             HhcCCCCCccchhHHhhhHHHHHHHHHHhcccccC
Q 038405          422 IGEGFLSDFRSITTARNQGEYIIGSLKLACLLESG  456 (863)
Q Consensus       422 iaeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  456 (863)
                      +++.+-..    ........+++..|...++++..
T Consensus       320 ~~~~~~~~----~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       320 VCEDIGVD----PLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             HHHhcCCC----CCcHHHHHHHHHHHHhcCCeEEE
Confidence            12211100    11235567788899999998864

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.96  E-value=1.4e-08  Score=108.59  Aligned_cols=256  Identities=14%  Similarity=0.104  Sum_probs=144.4

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      .+|||+++.++++..++..     .....+.++|++|+|||+||+.+++..   ...+   ..+..+.......+ ...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~l-~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNL---KITSGPALEKPGDL-AAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCE---EEeccchhcCchhH-HHHH
Confidence            4689999999999988852     345668899999999999999999876   2222   11221111112222 2222


Q ss_pred             HHcCCCccc----ccccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh------
Q 038405          228 KKLDISDYI----WNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC------  297 (863)
Q Consensus       228 ~~l~~~~~~----~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~------  297 (863)
                      ..++...--    .+..+ ......+...+.+.+..+|+|+..+...+..   .+|   +.+-|..||+...+.      
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR  149 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDR  149 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhh
Confidence            333221100    00001 1223345556666777788877655544321   122   244555666653221      


Q ss_pred             ------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhC------C--CChhhHHHHH
Q 038405          298 ------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSS------R--RSPREWQYVI  363 (863)
Q Consensus       298 ------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~------~--~~~~~w~~~~  363 (863)
                            +++++.++..+++.+.+......   -..+....|++.|+|.|-.+..++..+..      .  .+.+..+.  
T Consensus       150 ~~~~~~l~~l~~~e~~~il~~~~~~~~~~---~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~--  224 (305)
T TIGR00635       150 FGIILRLEFYTVEELAEIVSRSAGLLNVE---IEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK--  224 (305)
T ss_pred             cceEEEeCCCCHHHHHHHHHHHHHHhCCC---cCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH--
Confidence                  78999999999999887643222   22567789999999999666555443210      0  11111111  


Q ss_pred             HHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhh-hhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHH
Q 038405          364 DELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFL-YCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEY  442 (863)
Q Consensus       364 ~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl-~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~  442 (863)
                                      ....+...|..++.. .+..+. ..+.++.+ .++.+.+....   |         ......+.
T Consensus       225 ----------------~l~~l~~~~~~l~~~-~~~~L~al~~~~~~~-~~~~~~ia~~l---g---------~~~~~~~~  274 (305)
T TIGR00635       225 ----------------ALEMLMIDELGLDEI-DRKLLSVLIEQFQGG-PVGLKTLAAAL---G---------EDADTIED  274 (305)
T ss_pred             ----------------HHHHhCCCCCCCCHH-HHHHHHHHHHHhCCC-cccHHHHHHHh---C---------CCcchHHH
Confidence                            222245567888874 555554 44566533 44444433221   1         12234555


Q ss_pred             HHH-HHHHhcccccCC
Q 038405          443 IIG-SLKLACLLESGE  457 (863)
Q Consensus       443 ~~~-~L~~~~ll~~~~  457 (863)
                      .++ .|++++|++...
T Consensus       275 ~~e~~Li~~~li~~~~  290 (305)
T TIGR00635       275 VYEPYLLQIGFLQRTP  290 (305)
T ss_pred             hhhHHHHHcCCcccCC
Confidence            577 699999997543

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.92  E-value=1.5e-08  Score=108.81  Aligned_cols=265  Identities=13%  Similarity=0.089  Sum_probs=144.4

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      .+|+|+++.++.+..++..     ...+.+.|+|++|+||||||+.+++..   ...+   .++... .......+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~---~~~~~~-~~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNI---RITSGP-ALEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecc-cccChHHHHHHH
Confidence            5799999999998877742     345678899999999999999999987   2222   112211 111122233333


Q ss_pred             HHcCCCcccc-cc-cC-hhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh-------
Q 038405          228 KKLDISDYIW-NM-KG-EYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-------  297 (863)
Q Consensus       228 ~~l~~~~~~~-~~-~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~-------  297 (863)
                      ..+....-.+ +. .. .......+...+.+.+..+|+|+..+...+.   ..+|   +.+-|..||+...+.       
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~---~~l~---~~~li~at~~~~~l~~~L~sRf  171 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIR---LDLP---PFTLIGATTRAGLLTSPLRDRF  171 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccccee---ecCC---CceEEeecCCcccCCHHHHHhc
Confidence            3332211000 00 00 0112223445556666677777655432221   1111   234555666643222       


Q ss_pred             -----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhcCCCc
Q 038405          298 -----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSR  372 (863)
Q Consensus       298 -----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~~~~~  372 (863)
                           +++++.++..+++...+.......   .++....|++.|+|.|-.+..+...+.      .|....   ......
T Consensus       172 ~~~~~l~~~~~~e~~~il~~~~~~~~~~~---~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~---~~~~I~  239 (328)
T PRK00080        172 GIVQRLEFYTVEELEKIVKRSARILGVEI---DEEGALEIARRSRGTPRIANRLLRRVR------DFAQVK---GDGVIT  239 (328)
T ss_pred             CeeeecCCCCHHHHHHHHHHHHHHcCCCc---CHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHc---CCCCCC
Confidence                 789999999999998876543222   256789999999999965544444321      111110   000000


Q ss_pred             cCCCCccccchhhcccCCCChhhHhHHhh-hhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHHHH-HHHHh
Q 038405          373 FAGMGNLVFPILRFSYDNLTDDTLKTCFL-YCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIG-SLKLA  450 (863)
Q Consensus       373 ~~~~~~~i~~~l~~sy~~L~~~~~k~cfl-~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~~~-~L~~~  450 (863)
                      . ..-......+...|..|++. .+..+. ....|+.+ .+..+.+....            .......++.++ .|++.
T Consensus       240 ~-~~v~~~l~~~~~~~~~l~~~-~~~~l~~~~~~~~~~-~~~~~~~a~~l------------g~~~~~~~~~~e~~Li~~  304 (328)
T PRK00080        240 K-EIADKALDMLGVDELGLDEM-DRKYLRTIIEKFGGG-PVGLDTLAAAL------------GEERDTIEDVYEPYLIQQ  304 (328)
T ss_pred             H-HHHHHHHHHhCCCcCCCCHH-HHHHHHHHHHHcCCC-ceeHHHHHHHH------------CCCcchHHHHhhHHHHHc
Confidence            0 00012334456677788875 566664 66667655 45555543321            111233444466 78999


Q ss_pred             cccccCC
Q 038405          451 CLLESGE  457 (863)
Q Consensus       451 ~ll~~~~  457 (863)
                      +|++...
T Consensus       305 ~li~~~~  311 (328)
T PRK00080        305 GFIQRTP  311 (328)
T ss_pred             CCcccCC
Confidence            9997543

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

Probab=98.81  E-value=4.9e-09  Score=99.38  Aligned_cols=104  Identities=30%  Similarity=0.388  Sum_probs=24.5

Q ss_pred             CCCccEEEeecccccccchhhhh-cCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhh-hcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFE-SMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI-MYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~-~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i-~~L~~L~~L  597 (863)
                      +.+++.|+|.+|.+..+..  ++ .+.+|++|+|++| .++.++ .+..+++|++|++++|.|+.++..+ ..+++|++|
T Consensus        18 ~~~~~~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   93 (175)
T PF14580_consen   18 PVKLRELNLRGNQISTIEN--LGATLDKLEVLDLSNN-QITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQEL   93 (175)
T ss_dssp             ------------------S----TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-CHHHHHH-TT--EE
T ss_pred             ccccccccccccccccccc--hhhhhcCCCEEECCCC-CCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcCCEE
Confidence            3345555555555444432  22 3455555555555 455443 2445555555555555555554433 245555555


Q ss_pred             ecCCCCCccccch-hhhcCCCCCceeeccCcc
Q 038405          598 LLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       598 ~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~  628 (863)
                      ++++|. +..+.. ..+..+++|++|++.+|.
T Consensus        94 ~L~~N~-I~~l~~l~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   94 YLSNNK-ISDLNELEPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             E-TTS----SCCCCGGGGG-TT--EEE-TT-G
T ss_pred             ECcCCc-CCChHHhHHHHcCCCcceeeccCCc
Confidence            555554 222211 114445555555555544

>PF05729 NACHT: NACHT domain

Probab=98.81  E-value=1.9e-08  Score=97.01  Aligned_cols=131  Identities=21%  Similarity=0.235  Sum_probs=82.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCC----CCEEEEEEeCCCCCHH---HHHHHHHHHcCCCcccccccChhhHHH
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHC----FDLVIFVAVSKEGNLE---KIQEVIRKKLDISDYIWNMKGEYDRAV  247 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~  247 (863)
                      |++.|+|.+|+||||+++.++.+.. ....    +...+|+..+......   .+...|..+.....     .....   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLA-EEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHH-hcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---
Confidence            5899999999999999999998773 2222    4567777766554432   34444444432211     11111   


Q ss_pred             HHHHH-hccCcEEEEEcccccccc---------ccccc-ccCCC-CCCCeEEEEeecchhhh-------------cccCC
Q 038405          248 EILIS-LRRKKFVLLLDDVWERLD---------LSKTG-VSLSD-CQNGSKIVFTTRSEEVC-------------VECLS  302 (863)
Q Consensus       248 ~l~~~-l~~k~~LlVlDdv~~~~~---------~~~~~-~~l~~-~~~gs~iivTTr~~~v~-------------l~~L~  302 (863)
                      .+... -+.++++||+|++++...         +.++. ..++. ..+++++|||||.....             +.+++
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~  151 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFS  151 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCC
Confidence            12222 257899999999987532         11222 12222 35689999999987762             78889


Q ss_pred             HHHHHHHHhHhh
Q 038405          303 PEAALDLFRYKV  314 (863)
Q Consensus       303 ~~~a~~Lf~~~~  314 (863)
                      +++..+++.+..
T Consensus       152 ~~~~~~~~~~~f  163 (166)
T PF05729_consen  152 EEDIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887654

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

Probab=98.80  E-value=5e-09  Score=99.31  Aligned_cols=122  Identities=27%  Similarity=0.290  Sum_probs=55.3

Q ss_pred             cceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhh-hcccccceeecc
Q 038405          501 EDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLS  577 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i-~~L~~L~~L~L~  577 (863)
                      +.+.|++.++.++.+....  +.+|++|++++|.++.++.  +..++.|++|++++| .++.++..+ ..+++|++|+++
T Consensus        20 ~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~--l~~L~~L~~L~L~~N-~I~~i~~~l~~~lp~L~~L~L~   96 (175)
T PF14580_consen   20 KLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEG--LPGLPRLKTLDLSNN-RISSISEGLDKNLPNLQELYLS   96 (175)
T ss_dssp             ----------------S--TT-TT--EEE-TTS--S--TT------TT--EEE--SS----S-CHHHHHH-TT--EEE-T
T ss_pred             ccccccccccccccccchhhhhcCCCEEECCCCCCccccC--ccChhhhhhcccCCC-CCCccccchHHhCCcCCEEECc
Confidence            5688999999998887654  7899999999999998875  788999999999999 888887656 469999999999


Q ss_pred             CCCccccc--hhhhcccCccEEecCCCCCccccc---hhhhcCCCCCceeeccC
Q 038405          578 NTSIEELP--SEIMYLKNLKILLLDGMRHFHLIP---ARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       578 ~~~i~~lP--~~i~~L~~L~~L~l~~~~~l~~lp---~~~i~~L~~L~~L~l~~  626 (863)
                      +|+|..+-  ..+..+++|+.|++.+|+. ...+   .-++..+++|+.||...
T Consensus        97 ~N~I~~l~~l~~L~~l~~L~~L~L~~NPv-~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   97 NNKISDLNELEPLSSLPKLRVLSLEGNPV-CEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             TS---SCCCCGGGGG-TT--EEE-TT-GG-GGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             CCcCCChHHhHHHHcCCCcceeeccCCcc-cchhhHHHHHHHHcChhheeCCEE
Confidence            99998764  3477899999999999984 3333   24577899999998753

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

Probab=98.80  E-value=2e-09  Score=111.35  Aligned_cols=103  Identities=18%  Similarity=0.233  Sum_probs=51.3

Q ss_pred             cccceEEEeccCCccccCC---CC-CCCccEEEeecccccccc--hhhhhcCCCccEEeccCCcCccccchh--hhcccc
Q 038405          499 WREDFRLSLWGSSIEYLPE---TP-CPHLQTLLVRFTVLEIFP--HRFFESMGALKVLDLSYNLDLTQLPAE--MGALIN  570 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~---~~-~~~Lr~L~l~~~~l~~l~--~~~~~~l~~L~~L~Ls~~~~i~~lp~~--i~~L~~  570 (863)
                      .++++.+++.++.+...+.   .. |++++.|+|+.|-+..+.  ..+...+++|+.|+|+.| .+...-++  -..+.+
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~N-rl~~~~~s~~~~~l~~  198 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSN-RLSNFISSNTTLLLSH  198 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccc-cccCCccccchhhhhh
Confidence            4466667776666555442   11 666666666666332221  123455666666666665 22221111  124555


Q ss_pred             cceeeccCCCcc--ccchhhhcccCccEEecCCC
Q 038405          571 LRCLNLSNTSIE--ELPSEIMYLKNLKILLLDGM  602 (863)
Q Consensus       571 L~~L~L~~~~i~--~lP~~i~~L~~L~~L~l~~~  602 (863)
                      |+.|.|+.|+++  .+-.....+++|+.|+|..|
T Consensus       199 lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N  232 (505)
T KOG3207|consen  199 LKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEAN  232 (505)
T ss_pred             hheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcc
Confidence            566666666554  12222334555555555555

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

Probab=98.67  E-value=5.9e-09  Score=107.90  Aligned_cols=204  Identities=21%  Similarity=0.224  Sum_probs=137.3

Q ss_pred             CCCccEEEeecccccccch-hhhhcCCCccEEeccCCcCcc---ccchhhhcccccceeeccCCCccccchh--hhcccC
Q 038405          520 CPHLQTLLVRFTVLEIFPH-RFFESMGALKVLDLSYNLDLT---QLPAEMGALINLRCLNLSNTSIEELPSE--IMYLKN  593 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~-~~~~~l~~L~~L~Ls~~~~i~---~lp~~i~~L~~L~~L~L~~~~i~~lP~~--i~~L~~  593 (863)
                      +.+|+...|.++.+...+. .....|++++.||||.| .+.   .+-.....|++|+.|+|+.|.+...-++  -..+++
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~  198 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSH  198 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhh
Confidence            7788888888886655553 34677889999999988 433   3334456888899999998877644333  235778


Q ss_pred             ccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccc
Q 038405          594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW  673 (863)
Q Consensus       594 L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~  673 (863)
                      |+.|.++.|.....--.......++|+.|++..|........                                    +.
T Consensus       199 lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~------------------------------------~~  242 (505)
T KOG3207|consen  199 LKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKAT------------------------------------ST  242 (505)
T ss_pred             hheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecc------------------------------------hh
Confidence            888888888733222222344667778887776531110000                                    01


Q ss_pred             cccccccEEEecccCCccccc---ccccCCcceeEeccCcccccC-CCC---CCCCCCCCCCEEEEecCCC--CCCCccc
Q 038405          674 KLCSCIKRLTIMHNLDSHSID---LRNMMHLETLNIVECSLERVD-PTF---NGWTNFHNLHHLSIRVCPV--IRDLTWI  744 (863)
Q Consensus       674 ~~~~~L~~L~l~~~~~~~~~~---l~~~~~L~~L~l~~~~l~~~~-~~~---~~~~~l~~L~~L~L~~~~~--~~~l~~l  744 (863)
                      .-++.|+.|+|++|.......   ...++.|+.|.++.|++.++. +..   .-...+++|++|++..|+.  ...+..+
T Consensus       243 ~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l  322 (505)
T KOG3207|consen  243 KILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHL  322 (505)
T ss_pred             hhhhHHhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCccccccccchh
Confidence            123468889999998876663   678899999999999987772 211   0124689999999999976  4455556


Q ss_pred             ccCCCcceEeeccCcc
Q 038405          745 REAPNLQFLSLVNCQA  760 (863)
Q Consensus       745 ~~l~~L~~L~L~~~~~  760 (863)
                      ..+++|+.|.+..++.
T Consensus       323 ~~l~nlk~l~~~~n~l  338 (505)
T KOG3207|consen  323 RTLENLKHLRITLNYL  338 (505)
T ss_pred             hccchhhhhhcccccc
Confidence            6788888888776654

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

Probab=98.64  E-value=7.5e-10  Score=117.83  Aligned_cols=152  Identities=26%  Similarity=0.338  Sum_probs=86.0

Q ss_pred             EEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          504 RLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      ...++.|.+..+|...  |-.|..+.+..|.+..+|.. ++.+..|.+|||+.| .+..+|..++.|+ |+.|-+++|++
T Consensus        79 ~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~-i~~L~~lt~l~ls~N-qlS~lp~~lC~lp-Lkvli~sNNkl  155 (722)
T KOG0532|consen   79 FADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEA-ICNLEALTFLDLSSN-QLSHLPDGLCDLP-LKVLIVSNNKL  155 (722)
T ss_pred             hhhccccccccCchHHHHHHHHHHHHHHhccceecchh-hhhhhHHHHhhhccc-hhhcCChhhhcCc-ceeEEEecCcc
Confidence            3445555566665554  55666666666666666654 556666666666666 6666666666553 66666666666


Q ss_pred             cccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeec
Q 038405          582 EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLG  661 (863)
Q Consensus       582 ~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~  661 (863)
                      +.+|..++.+..|.+||.+.|. +..+|.. ++.+.+|+.|.+..|++..+...-.  .-.|-.|+..+|++..+++.+.
T Consensus       156 ~~lp~~ig~~~tl~~ld~s~ne-i~slpsq-l~~l~slr~l~vrRn~l~~lp~El~--~LpLi~lDfScNkis~iPv~fr  231 (722)
T KOG0532|consen  156 TSLPEEIGLLPTLAHLDVSKNE-IQSLPSQ-LGYLTSLRDLNVRRNHLEDLPEELC--SLPLIRLDFSCNKISYLPVDFR  231 (722)
T ss_pred             ccCCcccccchhHHHhhhhhhh-hhhchHH-hhhHHHHHHHHHhhhhhhhCCHHHh--CCceeeeecccCceeecchhhh
Confidence            6666666666666666666665 5556655 5666666666666655544322111  1223334444444444444444


Q ss_pred             C
Q 038405          662 S  662 (863)
Q Consensus       662 ~  662 (863)
                      .
T Consensus       232 ~  232 (722)
T KOG0532|consen  232 K  232 (722)
T ss_pred             h
Confidence            3

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

Probab=98.63  E-value=3.2e-08  Score=110.03  Aligned_cols=102  Identities=29%  Similarity=0.393  Sum_probs=45.1

Q ss_pred             CCccEEEeecccccccchhhhhcCC-CccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMG-ALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~-~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +.+..|.+.++.+..+++. ...+. +|+.|+++++ .+..+|..++.+++|+.|++++|.+..+|...+.+++|+.|++
T Consensus       116 ~~l~~L~l~~n~i~~i~~~-~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~l  193 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPL-IGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDL  193 (394)
T ss_pred             cceeEEecCCcccccCccc-cccchhhccccccccc-chhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheec
Confidence            3444444444444444432 22221 4444444444 4444444444444444444444444444444444444444444


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccC
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~  626 (863)
                      ++|. +..+|.. ++.+..|++|.+.+
T Consensus       194 s~N~-i~~l~~~-~~~~~~L~~l~~~~  218 (394)
T COG4886         194 SGNK-ISDLPPE-IELLSALEELDLSN  218 (394)
T ss_pred             cCCc-cccCchh-hhhhhhhhhhhhcC
Confidence            4444 4444433 23333344444443

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

Probab=98.61  E-value=7.2e-09  Score=101.69  Aligned_cols=130  Identities=27%  Similarity=0.335  Sum_probs=106.2

Q ss_pred             ccccccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccce
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRC  573 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~  573 (863)
                      ...|..+..+.+++|.++++..+.  .|.+|.|++++|.+..+..  +..+++|..||||+| .+.++-..-.+|-|.++
T Consensus       280 ~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  280 ADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGN-LLAECVGWHLKLGNIKT  356 (490)
T ss_pred             cchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccc-hhHhhhhhHhhhcCEee
Confidence            456778888999999999988876  8999999999998887765  778999999999999 66666544457788899


Q ss_pred             eeccCCCccccchhhhcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcchh
Q 038405          574 LNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       574 L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~  630 (863)
                      |.|++|.|..+ +++++|.+|..||+++|+ +..+.. .-||+|+.|++|.+.+|.+.
T Consensus       357 L~La~N~iE~L-SGL~KLYSLvnLDl~~N~-Ie~ldeV~~IG~LPCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  357 LKLAQNKIETL-SGLRKLYSLVNLDLSSNQ-IEELDEVNHIGNLPCLETLRLTGNPLA  412 (490)
T ss_pred             eehhhhhHhhh-hhhHhhhhheeccccccc-hhhHHHhcccccccHHHHHhhcCCCcc
Confidence            99999998888 468999999999999987 554432 22889999999999887654

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

Probab=98.60  E-value=4.3e-08  Score=109.08  Aligned_cols=104  Identities=32%  Similarity=0.412  Sum_probs=76.4

Q ss_pred             EEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccc-ccceeeccCCCccccchhhhcccCccEEecCCCC
Q 038405          525 TLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALI-NLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       525 ~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~-~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~  603 (863)
                      .+.+..+.+...... ...++.+..|++.++ .+..+|...+.+. +|+.|++++|.+..+|..++.+++|+.|++++|+
T Consensus        97 ~l~~~~~~~~~~~~~-~~~~~~l~~L~l~~n-~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~  174 (394)
T COG4886          97 SLDLNLNRLRSNISE-LLELTNLTSLDLDNN-NITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND  174 (394)
T ss_pred             eeeccccccccCchh-hhcccceeEEecCCc-ccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCch
Confidence            455555554222222 445577888888888 7888888777774 8888888888888888778888888888888887


Q ss_pred             CccccchhhhcCCCCCceeeccCcchhhh
Q 038405          604 HFHLIPARVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       604 ~l~~lp~~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                       +..+|.. .+.+++|+.|++++|.+..+
T Consensus       175 -l~~l~~~-~~~~~~L~~L~ls~N~i~~l  201 (394)
T COG4886         175 -LSDLPKL-LSNLSNLNNLDLSGNKISDL  201 (394)
T ss_pred             -hhhhhhh-hhhhhhhhheeccCCccccC
Confidence             7777765 44788888888888765543

>PRK06893 DNA replication initiation factor; Validated

Probab=98.60  E-value=3.4e-07  Score=92.66  Aligned_cols=142  Identities=15%  Similarity=0.167  Sum_probs=85.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ...+.+.|||.+|+|||+||+.+++...   .....+.|+.+....   ...                       ..+.+
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~~---~~~-----------------------~~~~~   87 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKSQ---YFS-----------------------PAVLE   87 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHhh---hhh-----------------------HHHHh
Confidence            3446789999999999999999999862   223345677653110   000                       01111


Q ss_pred             HhccCcEEEEEcccccc---ccccc-ccccCCC-CCCCeEEEEeecch----------hhh----------cccCCHHHH
Q 038405          252 SLRRKKFVLLLDDVWER---LDLSK-TGVSLSD-CQNGSKIVFTTRSE----------EVC----------VECLSPEAA  306 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~~~---~~~~~-~~~~l~~-~~~gs~iivTTr~~----------~v~----------l~~L~~~~a  306 (863)
                      .++ +.-+||+||+|..   ..|+. +...+.. ...|+.+||+|.+.          .+.          +++++.++.
T Consensus        88 ~~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~  166 (229)
T PRK06893         88 NLE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQK  166 (229)
T ss_pred             hcc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHH
Confidence            222 2348999999863   34442 2222221 12355665544433          111          788999999


Q ss_pred             HHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          307 LDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       307 ~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      ++++.+.+.......   -+++..-|++.+.|..-++..+
T Consensus       167 ~~iL~~~a~~~~l~l---~~~v~~~L~~~~~~d~r~l~~~  203 (229)
T PRK06893        167 IIVLQRNAYQRGIEL---SDEVANFLLKRLDRDMHTLFDA  203 (229)
T ss_pred             HHHHHHHHHHcCCCC---CHHHHHHHHHhccCCHHHHHHH
Confidence            999998886443222   2677788888888776554443

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

Probab=98.57  E-value=5.1e-09  Score=107.80  Aligned_cols=284  Identities=19%  Similarity=0.200  Sum_probs=164.1

Q ss_pred             CccEEEeecc-cccccc-hhhhhcCCCccEEeccCCcCcccc-chhh-hcccccceeeccCC-Ccccc--chhhhcccCc
Q 038405          522 HLQTLLVRFT-VLEIFP-HRFFESMGALKVLDLSYNLDLTQL-PAEM-GALINLRCLNLSNT-SIEEL--PSEIMYLKNL  594 (863)
Q Consensus       522 ~Lr~L~l~~~-~l~~l~-~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i-~~L~~L~~L~L~~~-~i~~l--P~~i~~L~~L  594 (863)
                      .|+.|.+.|+ ....-+ ..+-..++++..|++.+|..++.- -.++ ..+..|++|++..| .|+..  -.-...+++|
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL  218 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKL  218 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhH
Confidence            5778888887 222111 123457888888899888655421 1222 36788899999886 66532  2224467888


Q ss_pred             cEEecCCCCCccccc-hhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc---ceeeEEeecCchhh--hh
Q 038405          595 KILLLDGMRHFHLIP-ARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ---IYEISITLGSASAL--FK  668 (863)
Q Consensus       595 ~~L~l~~~~~l~~lp-~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~---L~~l~~~~~~~~~l--~~  668 (863)
                      ++|+++.|..+..-- .....++.+|+.+...||.-.           .++.|......   +-++.  ...+..+  ..
T Consensus       219 ~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~-----------~le~l~~~~~~~~~i~~ln--l~~c~~lTD~~  285 (483)
T KOG4341|consen  219 KYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLEL-----------ELEALLKAAAYCLEILKLN--LQHCNQLTDED  285 (483)
T ss_pred             HHhhhccCchhhcCcchHHhccchhhhhhhhcccccc-----------cHHHHHHHhccChHhhccc--hhhhccccchH
Confidence            999998887544310 011345555666655554321           11122111111   11111  1111111  11


Q ss_pred             hhccccccccccEEEecccCCccccc----ccccCCcceeEeccCc-ccccCCCCCCCCCCCCCCEEEEecCCCCCCC--
Q 038405          669 INFSWKLCSCIKRLTIMHNLDSHSID----LRNMMHLETLNIVECS-LERVDPTFNGWTNFHNLHHLSIRVCPVIRDL--  741 (863)
Q Consensus       669 l~~~~~~~~~L~~L~l~~~~~~~~~~----l~~~~~L~~L~l~~~~-l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--  741 (863)
                      +...-..+..|+.|..+++.......    -.+..+|+.|-+++|. +++..... -..+.+.|+.+++..|....+-  
T Consensus       286 ~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~-l~rn~~~Le~l~~e~~~~~~d~tL  364 (483)
T KOG4341|consen  286 LWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTM-LGRNCPHLERLDLEECGLITDGTL  364 (483)
T ss_pred             HHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhh-hhcCChhhhhhcccccceehhhhH
Confidence            22223346678888888877654443    3456789999999887 44442221 1236788999999888655442  


Q ss_pred             cc-cccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCc-cCCCCccEEeeccCCCCC
Q 038405          742 TW-IREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGT-MPFPSLQNVSVTNCPNLR  819 (863)
Q Consensus       742 ~~-l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~-~~~~~L~~L~i~~C~~L~  819 (863)
                      .. -.++|.|+.|.|++|..+.+.    |...+.....+...|..+.|.+||.+..-.... ..+++|+.+++.+|....
T Consensus       365 ~sls~~C~~lr~lslshce~itD~----gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vt  440 (483)
T KOG4341|consen  365 ASLSRNCPRLRVLSLSHCELITDE----GIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVT  440 (483)
T ss_pred             hhhccCCchhccCChhhhhhhhhh----hhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhh
Confidence            12 246889999999998876543    111222344567788888899988876543322 246788888888877766


Q ss_pred             CCCC
Q 038405          820 ELPF  823 (863)
Q Consensus       820 ~lp~  823 (863)
                      +=|.
T Consensus       441 k~~i  444 (483)
T KOG4341|consen  441 KEAI  444 (483)
T ss_pred             hhhh
Confidence            5443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.56  E-value=3.8e-07  Score=101.11  Aligned_cols=167  Identities=17%  Similarity=0.142  Sum_probs=101.9

Q ss_pred             ccccchhhHHHH---HHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDE---VWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +++||.+..+..   +..++.......+.++|++|+||||+|+.+++..   ...|     +.++.......-.+.+.+ 
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~-----~~l~a~~~~~~~ir~ii~-   82 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPF-----EALSAVTSGVKDLREVIE-   82 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE-----EEEecccccHHHHHHHHH-
Confidence            568899888766   8888877777889999999999999999999876   3333     222221111111111211 


Q ss_pred             cCCCcccccccChhhHHHHHHHH-hccCcEEEEEccccccc--ccccccccCCCCCCCeEEEE--eecchhhh-------
Q 038405          230 LDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVF--TTRSEEVC-------  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iiv--TTr~~~v~-------  297 (863)
                                        ..... ..+++.+|++|+++...  ..+.+...+.   .|..++|  ||.+....       
T Consensus        83 ------------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~S  141 (413)
T PRK13342         83 ------------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLS  141 (413)
T ss_pred             ------------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhc
Confidence                              11111 24578899999998642  2333332222   2444444  34443322       


Q ss_pred             ------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHH
Q 038405          298 ------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARA  349 (863)
Q Consensus       298 ------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~  349 (863)
                            +.+++.++...++.+.+.........-..+..+.|++.|+|.|..+..+...
T Consensus       142 R~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        142 RAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             cceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence                  7889999999999886532110000223567888999999998766544433

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

Probab=98.55  E-value=2e-08  Score=98.66  Aligned_cols=133  Identities=21%  Similarity=0.248  Sum_probs=91.5

Q ss_pred             cccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhh
Q 038405          567 ALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDEL  646 (863)
Q Consensus       567 ~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L  646 (863)
                      ....|..||||+|.|+.+-+++.-+++++.|+++.|. +..+..  +..|++|++|++++|.+..+.-.           
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~-i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gw-----------  347 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNR-IRTVQN--LAELPQLQLLDLSGNLLAECVGW-----------  347 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccc-eeeehh--hhhcccceEeecccchhHhhhhh-----------
Confidence            3567889999999999999999999999999999987 444432  77889999999998765432110           


Q ss_pred             hhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCC
Q 038405          647 ECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHN  726 (863)
Q Consensus       647 ~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~  726 (863)
                         .                       ..+.+++.|.+++|.......++.+-+|..|++++|+++.+.... +++++|.
T Consensus       348 ---h-----------------------~KLGNIKtL~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~-~IG~LPC  400 (490)
T KOG1259|consen  348 ---H-----------------------LKLGNIKTLKLAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVN-HIGNLPC  400 (490)
T ss_pred             ---H-----------------------hhhcCEeeeehhhhhHhhhhhhHhhhhheeccccccchhhHHHhc-ccccccH
Confidence               0                       012245566666665544444666677778888888776664332 5567777


Q ss_pred             CCEEEEecCCCCCC
Q 038405          727 LHHLSIRVCPVIRD  740 (863)
Q Consensus       727 L~~L~L~~~~~~~~  740 (863)
                      |+.|.|.+|+....
T Consensus       401 LE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  401 LETLRLTGNPLAGS  414 (490)
T ss_pred             HHHHhhcCCCcccc
Confidence            77777777765433

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

Probab=98.55  E-value=4.3e-07  Score=94.00  Aligned_cols=160  Identities=21%  Similarity=0.219  Sum_probs=98.2

Q ss_pred             ccccchhhHH---HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKL---DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +++||.+..+   .-|..++..+.+...-+||++|+||||||+.++...   ...|     ..++...+-.+-++.+++.
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f-----~~~sAv~~gvkdlr~i~e~   95 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAF-----EALSAVTSGVKDLREIIEE   95 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCce-----EEeccccccHHHHHHHHHH
Confidence            3455554433   224445566788888999999999999999999876   3444     3333332222222222221


Q ss_pred             cCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEE--eecchhhh--------
Q 038405          230 LDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVF--TTRSEEVC--------  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iiv--TTr~~~v~--------  297 (863)
                      .                .  .....+++.+|++|.|..-+  +-+   ..+|.-.+|.-|+|  ||.|+...        
T Consensus        96 a----------------~--~~~~~gr~tiLflDEIHRfnK~QQD---~lLp~vE~G~iilIGATTENPsF~ln~ALlSR  154 (436)
T COG2256          96 A----------------R--KNRLLGRRTILFLDEIHRFNKAQQD---ALLPHVENGTIILIGATTENPSFELNPALLSR  154 (436)
T ss_pred             H----------------H--HHHhcCCceEEEEehhhhcChhhhh---hhhhhhcCCeEEEEeccCCCCCeeecHHHhhh
Confidence            1                0  12334899999999997532  222   22455567887776  77777654        


Q ss_pred             -----cccCCHHHHHHHHhHhhCccc--cC-CCCCh-HHHHHHHHHHcCCChH
Q 038405          298 -----VECLSPEAALDLFRYKVGEDV--FN-SHPEI-PTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 -----l~~L~~~~a~~Lf~~~~~~~~--~~-~~~~~-~~~~~~i~~~c~glPL  341 (863)
                           +++|+.+|-.+++.+.+....  .. ....+ ++....++..++|---
T Consensus       155 ~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R  207 (436)
T COG2256         155 ARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDAR  207 (436)
T ss_pred             hheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHH
Confidence                 899999999999988442211  11 01112 4566778888888653

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.51  E-value=7.7e-07  Score=106.31  Aligned_cols=299  Identities=15%  Similarity=0.156  Sum_probs=167.8

Q ss_pred             cccchhhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC---HHHHHHHHH
Q 038405          154 KTVGADSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN---LEKIQEVIR  227 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~---~~~~~~~i~  227 (863)
                      +++||+.+++.|...+.+   ....++.+.|..|||||+|+++|.....+.++.|-...+-....+..   ..+.+++++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            368999999999998854   56679999999999999999999988733323332222222222222   223333443


Q ss_pred             HHc-------------------CCCccc------------------cc--ccChhhH-----HHHHHHHh-ccCcEEEEE
Q 038405          228 KKL-------------------DISDYI------------------WN--MKGEYDR-----AVEILISL-RRKKFVLLL  262 (863)
Q Consensus       228 ~~l-------------------~~~~~~------------------~~--~~~~~~~-----~~~l~~~l-~~k~~LlVl  262 (863)
                      .++                   +.....                  .+  ......+     ...+.... +.|+.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            333                   111000                  00  0001111     11222222 356999999


Q ss_pred             cccccc-cc-cc---cccccCCC-CCCCeEEEEeecchhh--------------hcccCCHHHHHHHHhHhhCccccCCC
Q 038405          263 DDVWER-LD-LS---KTGVSLSD-CQNGSKIVFTTRSEEV--------------CVECLSPEAALDLFRYKVGEDVFNSH  322 (863)
Q Consensus       263 Ddv~~~-~~-~~---~~~~~l~~-~~~gs~iivTTr~~~v--------------~l~~L~~~~a~~Lf~~~~~~~~~~~~  322 (863)
                      ||+.-. .. +.   .+....+- .-....|..+......              .+.||+..+...+.....+...    
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----  236 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----  236 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----
Confidence            999432 11 11   11111100 0001112222211111              1999999999999988876532    


Q ss_pred             CChHHHHHHHHHHcCCChHHHHHHHHHHhCC------CChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhH
Q 038405          323 PEIPTLAQAVVGECKGLPLALITIARAMSSR------RSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTL  396 (863)
Q Consensus       323 ~~~~~~~~~i~~~c~glPLai~~~~~~l~~~------~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~  396 (863)
                      ....+..+.|+++.+|.|+.+..+-..+...      .+...|..-..++...     +..+.+...+..-.+.||.. .
T Consensus       237 ~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~-----~~~~~vv~~l~~rl~kL~~~-t  310 (849)
T COG3899         237 LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGIL-----ATTDAVVEFLAARLQKLPGT-T  310 (849)
T ss_pred             cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCc-----hhhHHHHHHHHHHHhcCCHH-H
Confidence            2346789999999999999999999888773      3455565544333222     11123555677888999996 8


Q ss_pred             hHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHHHHHHHHhcccccCC-----CCCCeE---EechH
Q 038405          397 KTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGE-----YSEDFV---KMHDV  468 (863)
Q Consensus       397 k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~-----~~~~~~---~mHdl  468 (863)
                      |..+-..|++-..+  +.+.|...+-.           .....+....+.|....++...+     ......   -.||.
T Consensus       311 ~~Vl~~AA~iG~~F--~l~~La~l~~~-----------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~  377 (849)
T COG3899         311 REVLKAAACIGNRF--DLDTLAALAED-----------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDR  377 (849)
T ss_pred             HHHHHHHHHhCccC--CHHHHHHHHhh-----------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHH
Confidence            99999999986544  45555444311           22334445555555555554221     011111   35777


Q ss_pred             HHHHHHH
Q 038405          469 VRDMALW  475 (863)
Q Consensus       469 v~d~~~~  475 (863)
                      +++.|-.
T Consensus       378 vqqaaY~  384 (849)
T COG3899         378 VQQAAYN  384 (849)
T ss_pred             HHHHHhc
Confidence            7777643

>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=98.49  E-value=7.7e-07  Score=83.69  Aligned_cols=122  Identities=18%  Similarity=0.205  Sum_probs=73.8

Q ss_pred             cchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc
Q 038405          156 VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY  235 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  235 (863)
                      +|++..++.+...+.....+.+.|+|.+|+||||+|+.+++...   ..-..++++...+..........+...      
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~~~~------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEGLVVAELFGHF------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence            47888999999998776778899999999999999999998862   222345666655443322211111000      


Q ss_pred             cccccChhhHHHHHHHHhccCcEEEEEcccccc-----cccccccccCCC---CCCCeEEEEeecch
Q 038405          236 IWNMKGEYDRAVEILISLRRKKFVLLLDDVWER-----LDLSKTGVSLSD---CQNGSKIVFTTRSE  294 (863)
Q Consensus       236 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----~~~~~~~~~l~~---~~~gs~iivTTr~~  294 (863)
                              ............++.+||+||++..     ..+......+..   ...+..||+||...
T Consensus        72 --------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          72 --------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             --------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence                    0011111223456789999999853     122222222211   13578888888764

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.48  E-value=1.8e-05  Score=91.53  Aligned_cols=193  Identities=15%  Similarity=0.063  Sum_probs=115.0

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC---CEEEEEEeCCC---CCHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF---DLVIFVAVSKE---GNLEKIQEVI  226 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~~~---~~~~~~~~~i  226 (863)
                      +.++|++..+..+.+.+.......+.|+|.+|+||||+|+.+++.. .....+   ...-|+.+...   .+...+...+
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~l  232 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPL  232 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEechhccCCHHHHhHHh
Confidence            5688999999998888876667789999999999999999998765 212222   12345544321   1222221111


Q ss_pred             ---------------HHHcCCCccc-------------c-c-ccChhhHHHHHHHHhccCcEEEEEcccccc--cccccc
Q 038405          227 ---------------RKKLDISDYI-------------W-N-MKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKT  274 (863)
Q Consensus       227 ---------------~~~l~~~~~~-------------~-~-~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~  274 (863)
                                     +...+.....             . + ..=....+..+.+.++++++.++-|+.|..  ..|..+
T Consensus       233 lg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~i  312 (615)
T TIGR02903       233 LGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYI  312 (615)
T ss_pred             cCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcccchhh
Confidence                           1111211000             0 0 001123466788888889999997777653  457777


Q ss_pred             cccCCCCCCCeEEEE--eecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          275 GVSLSDCQNGSKIVF--TTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       275 ~~~l~~~~~gs~iiv--TTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ...+....+...|+|  ||++....            +.+++.+|.++++...+.......   ..++.+.|.+.+..-+
T Consensus       313 k~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~l---s~eal~~L~~ys~~gR  389 (615)
T TIGR02903       313 KKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHL---AAGVEELIARYTIEGR  389 (615)
T ss_pred             hhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHCCCcHH
Confidence            666655555555655  56654322            678899999999988765322111   1445556666655546


Q ss_pred             HHHHHHHHH
Q 038405          341 LALITIARA  349 (863)
Q Consensus       341 Lai~~~~~~  349 (863)
                      -|+..++..
T Consensus       390 raln~L~~~  398 (615)
T TIGR02903       390 KAVNILADV  398 (615)
T ss_pred             HHHHHHHHH
Confidence            666655544

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.47  E-value=8e-06  Score=92.49  Aligned_cols=170  Identities=19%  Similarity=0.256  Sum_probs=103.3

Q ss_pred             ccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      .+++|.++.++++.+|+..    ...+.+.|+|++|+||||+|+.+++..   .  |+ .+-++.++......+ ..++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~--~~-~ielnasd~r~~~~i-~~~i~   86 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---G--WE-VIELNASDQRTADVI-ERVAG   86 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---C--CC-EEEEcccccccHHHH-HHHHH
Confidence            5689999999999999854    226789999999999999999999876   1  22 233444443333322 22222


Q ss_pred             HcCCCcccccccChhhHHHHHHHHhc-cCcEEEEEcccccccc------cccccccCCCCCCCeEEEEeecchh------
Q 038405          229 KLDISDYIWNMKGEYDRAVEILISLR-RKKFVLLLDDVWERLD------LSKTGVSLSDCQNGSKIVFTTRSEE------  295 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~------~~~~~~~l~~~~~gs~iivTTr~~~------  295 (863)
                      ......                 .+. .++-+||+|+++....      +..+...+.  ..+..||+|+.+..      
T Consensus        87 ~~~~~~-----------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         87 EAATSG-----------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRE  147 (482)
T ss_pred             HhhccC-----------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhh
Confidence            211110                 011 3678999999986422      333322222  22344666664321      


Q ss_pred             hh-------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHh
Q 038405          296 VC-------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMS  351 (863)
Q Consensus       296 v~-------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~  351 (863)
                      +.       +.+++.++....+...+.......+   .+....|++.++|-.-.+......+.
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~---~eaL~~Ia~~s~GDlR~ain~Lq~~a  207 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEGIECD---DEALKEIAERSGGDLRSAINDLQAIA  207 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence            11       6778888888887776643332222   56788999999987655544333333

>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=98.47  E-value=1.3e-07  Score=73.54  Aligned_cols=58  Identities=38%  Similarity=0.547  Sum_probs=27.9

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTS  580 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~  580 (863)
                      +|++|++++|.+..+|...|..+++|++|++++| .+..+|. .|.++++|++|++++|+
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCc
Confidence            4455555555555555444555555555555544 3333332 34444555555544443

...

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

Probab=98.45  E-value=2.4e-08  Score=102.92  Aligned_cols=276  Identities=19%  Similarity=0.148  Sum_probs=151.4

Q ss_pred             cceEEEeccCCccccC---CCC--CCCccEEEeeccc-ccccc-hhhhhcCCCccEEeccCCcCcccc--chhhhccccc
Q 038405          501 EDFRLSLWGSSIEYLP---ETP--CPHLQTLLVRFTV-LEIFP-HRFFESMGALKVLDLSYNLDLTQL--PAEMGALINL  571 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~---~~~--~~~Lr~L~l~~~~-l~~l~-~~~~~~l~~L~~L~Ls~~~~i~~l--p~~i~~L~~L  571 (863)
                      .++.+++.+..-....   ...  ||++..|.+.+|. ++... .++-..+++|++|+|..|..++..  -.-...+++|
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL  218 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKL  218 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhH
Confidence            3455666654332221   111  8888888888883 32211 122346788899998887566532  2223468888


Q ss_pred             ceeeccCC-Cccc--cchhhhcccCccEEecCCCCCccccchhhhc----CCCCCceeeccCcchhhhccCCCCccccch
Q 038405          572 RCLNLSNT-SIEE--LPSEIMYLKNLKILLLDGMRHFHLIPARVFS----SLLSLKVFSLFSTELIELHRMPPNQTTILD  644 (863)
Q Consensus       572 ~~L~L~~~-~i~~--lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~----~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~  644 (863)
                      .||++++| .|+.  +-.-...+.+|+.+.++||...   +...+.    .+.-+..+++..|...        ....+.
T Consensus       219 ~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~---~le~l~~~~~~~~~i~~lnl~~c~~l--------TD~~~~  287 (483)
T KOG4341|consen  219 KYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLEL---ELEALLKAAAYCLEILKLNLQHCNQL--------TDEDLW  287 (483)
T ss_pred             HHhhhccCchhhcCcchHHhccchhhhhhhhcccccc---cHHHHHHHhccChHhhccchhhhccc--------cchHHH
Confidence            99999888 5654  2233445666777777777422   222222    2223344444443211        111122


Q ss_pred             hhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc----ccccCCcceeEeccCcc-cccCCCCC
Q 038405          645 ELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID----LRNMMHLETLNIVECSL-ERVDPTFN  719 (863)
Q Consensus       645 ~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~----l~~~~~L~~L~l~~~~l-~~~~~~~~  719 (863)
                      .+......++.+..+-.....-..+......+.+|+.|.+.+|.......    -.+++.|+.+++.+|.. .+-.... 
T Consensus       288 ~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~s-  366 (483)
T KOG4341|consen  288 LIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLAS-  366 (483)
T ss_pred             HHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhh-
Confidence            22222223333332222211112222233456788888888887544332    24567888888888862 2111110 


Q ss_pred             CCCCCCCCCEEEEecCCCCCCC--cc----cccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccc
Q 038405          720 GWTNFHNLHHLSIRVCPVIRDL--TW----IREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPS  793 (863)
Q Consensus       720 ~~~~l~~L~~L~L~~~~~~~~l--~~----l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~  793 (863)
                      ...+++.|+.|.++.|...++.  ..    -..+..|..|.|++|+.+.+-.        ......+++|+.+++.+|..
T Consensus       367 ls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~--------Le~l~~c~~Leri~l~~~q~  438 (483)
T KOG4341|consen  367 LSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDAT--------LEHLSICRNLERIELIDCQD  438 (483)
T ss_pred             hccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHH--------HHHHhhCcccceeeeechhh
Confidence            2236788899999888766654  11    2356778888898888765421        12344567788887777766


Q ss_pred             ccc
Q 038405          794 LKR  796 (863)
Q Consensus       794 L~~  796 (863)
                      ...
T Consensus       439 vtk  441 (483)
T KOG4341|consen  439 VTK  441 (483)
T ss_pred             hhh
Confidence            654

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.45  E-value=2.8e-06  Score=96.70  Aligned_cols=198  Identities=15%  Similarity=0.124  Sum_probs=113.3

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccc--cCCCC--EEEEEEeCCCCCHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDV--NHCFD--LVIFVAVSKEGNLEKIQ  223 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~--~~~wv~~~~~~~~~~~~  223 (863)
                      +.+.|||+++++|...|..     ....++.|+|.+|.|||+.++.|.+.....  .....  .+++|....-.+...+.
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            4567999999999998843     233578899999999999999998765211  11111  35677777767788888


Q ss_pred             HHHHHHcCCCcccccccChhhHHHHHHHHhc---cCcEEEEEcccccccc--cccccccCC-CCCCCeEEEE--eecchh
Q 038405          224 EVIRKKLDISDYIWNMKGEYDRAVEILISLR---RKKFVLLLDDVWERLD--LSKTGVSLS-DCQNGSKIVF--TTRSEE  295 (863)
Q Consensus       224 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~~~~--~~~~~~~l~-~~~~gs~iiv--TTr~~~  295 (863)
                      ..|.+++..... .......+....+...+.   +...+||||+|+....  -+.+...+. ....+++|+|  +|....
T Consensus       835 qvI~qqL~g~~P-~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlD  913 (1164)
T PTZ00112        835 QVLYKQLFNKKP-PNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMD  913 (1164)
T ss_pred             HHHHHHHcCCCC-CccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchh
Confidence            999888843321 112233344445554442   2345899999985321  011111111 1123555544  332211


Q ss_pred             hh-----------------cccCCHHHHHHHHhHhhCcc-ccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHh
Q 038405          296 VC-----------------VECLSPEAALDLFRYKVGED-VFNSHPEIPTLAQAVVGECKGLPLALITIARAMS  351 (863)
Q Consensus       296 v~-----------------l~~L~~~~a~~Lf~~~~~~~-~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~  351 (863)
                      ..                 ..+++.++-.+++..++... ..-.+..++-+|+.++..-|-.-.||.++-.+..
T Consensus       914 LperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        914 LPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             cchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence            11                 56778888888888877532 1111122233334333334445566665554443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.44  E-value=4.2e-06  Score=89.38  Aligned_cols=166  Identities=16%  Similarity=0.197  Sum_probs=107.7

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccc---cccCCCCEEEEEE-eCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFL---DVNHCFDLVIFVA-VSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~---~~~~~F~~~~wv~-~~~~~~~~~~~~~i~  227 (863)
                      .+++|-+..++.+.+++..+.. .++.++|+.|+||||+|+.++....   ....++|...|.. -+....++++. ++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir-~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIR-NII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHH-HHH
Confidence            4578999999999999977654 5668999999999999999887541   1235666666654 23333333422 233


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccc--cccccccccccCCCCCCCeEEEEeecchhhh--------
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVW--ERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--------  297 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~--~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~--------  297 (863)
                      +.+....                  ..+++-++|+|+++  +...+..+...+.....++.+|++|.+....        
T Consensus        83 ~~~~~~p------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc  144 (313)
T PRK05564         83 EEVNKKP------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRC  144 (313)
T ss_pred             HHHhcCc------------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhc
Confidence            3322111                  12345556666654  4455777776776666788999888765433        


Q ss_pred             ----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 ----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 ----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                          +.++++++....+......       -..+.++.++..++|.|..+.
T Consensus       145 ~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        145 QIYKLNRLSKEEIEKFISYKYND-------IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             eeeeCCCcCHHHHHHHHHHHhcC-------CCHHHHHHHHHHcCCCHHHHH
Confidence                6778888887777654321       114457788999999986554

>PTZ00202 tuzin; Provisional

Probab=98.43  E-value=9.8e-06  Score=85.68  Aligned_cols=151  Identities=18%  Similarity=0.147  Sum_probs=92.1

Q ss_pred             ccCCccccchhhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          149 GMATEKTVGADSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       149 ~~~~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      |.+.+.|+||+++...+...|.+   ...+++.|+|++|+|||||++.+....   .   ....+++..   +..+++..
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l---~---~~qL~vNpr---g~eElLr~  328 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE---G---MPAVFVDVR---GTEDTLRS  328 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC---C---ceEEEECCC---CHHHHHHH
Confidence            34457899999999999999954   234689999999999999999998765   1   123333333   67999999


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHh-----c-cCcEEEEEcccccccccccc---cccCCCCCCCeEEEEeecchhh
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISL-----R-RKKFVLLLDDVWERLDLSKT---GVSLSDCQNGSKIVFTTRSEEV  296 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~-~k~~LlVlDdv~~~~~~~~~---~~~l~~~~~gs~iivTTr~~~v  296 (863)
                      |+.++|.+.    .....++...|.+.+     . +++.+||+-= .+-..+..+   ...+.....-|.|++---.+..
T Consensus       329 LL~ALGV~p----~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l-reg~~l~rvyne~v~la~drr~ch~v~evplesl  403 (550)
T PTZ00202        329 VVKALGVPN----VEACGDLLDFISEACRRAKKMNGETPLLVLKL-REGSSLQRVYNEVVALACDRRLCHVVIEVPLESL  403 (550)
T ss_pred             HHHHcCCCC----cccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe-cCCCcHHHHHHHHHHHHccchhheeeeeehHhhc
Confidence            999999853    222334444444433     2 5666666531 111111111   1122233345566654333222


Q ss_pred             h-------------cccCCHHHHHHHHhHh
Q 038405          297 C-------------VECLSPEAALDLFRYK  313 (863)
Q Consensus       297 ~-------------l~~L~~~~a~~Lf~~~  313 (863)
                      .             +..++.++|.+.-.+.
T Consensus       404 t~~~~~lprldf~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        404 TIANTLLPRLDFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             chhcccCccceeEecCCCCHHHHHHHHhhc
Confidence            1             6667777777655443

>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=98.43  E-value=1.9e-07  Score=72.48  Aligned_cols=57  Identities=35%  Similarity=0.528  Sum_probs=27.6

Q ss_pred             ccceeeccCCCccccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCc
Q 038405          570 NLRCLNLSNTSIEELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       570 ~L~~L~L~~~~i~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~  627 (863)
                      +|++|++++|+|+.+|. .+..+++|++|++++|. +..+|++.|.+|++|++|++++|
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 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSS-ESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCc-cCccCHHHHcCCCCCCEEeCcCC
Confidence            34455555555555543 24445555555555444 44444444555555555555444

...

>PF13173 AAA_14: AAA domain

Probab=98.43  E-value=3.3e-07  Score=83.65  Aligned_cols=101  Identities=21%  Similarity=0.189  Sum_probs=69.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      .+++.|.|+.|+||||++++++.+.   . ....++|++..+.......                  +.+ ....+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~------------------~~~-~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLA------------------DPD-LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHh------------------hhh-hHHHHHHhh
Confidence            4689999999999999999999876   1 3345677766544221100                  000 223333333


Q ss_pred             ccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh
Q 038405          254 RRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC  297 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~  297 (863)
                      ..++.+|+||+|....+|......+.+..+..+|++|+.+....
T Consensus        59 ~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l  102 (128)
T PF13173_consen   59 KPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLL  102 (128)
T ss_pred             ccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHH
Confidence            44778899999999888888777666656678999999876543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.42  E-value=6.5e-06  Score=93.48  Aligned_cols=185  Identities=14%  Similarity=0.114  Sum_probs=105.7

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.+..++.|.+++..+++ ..+.++|..|+||||+|+.+.+... -...++       +..+..-...+.|...-.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn-Ce~~~~-------~~PCG~C~sCr~I~~G~h   87 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN-CETGVT-------SQPCGVCRACREIDEGRF   87 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CccCCC-------CCCCcccHHHHHHhcCCC
Confidence            5689999999999999987664 4567999999999999998887651 111110       001111111111111000


Q ss_pred             CCcccc---cccChhhHHHHHHHH----hccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh-----
Q 038405          232 ISDYIW---NMKGEYDRAVEILIS----LRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       232 ~~~~~~---~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~-----  297 (863)
                      ......   .....++....+...    ..++.-++|||+++...  .+..+...+.......++|+||++..-.     
T Consensus        88 ~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIr  167 (830)
T PRK07003         88 VDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVL  167 (830)
T ss_pred             ceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhh
Confidence            000000   001111111111110    12455688999998653  3555544444444567777777765432     


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHHH
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIAR  348 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~  348 (863)
                             ++.++.++..+.+.+.+.......   ..+..+.|++.++|.. -|+..+-.
T Consensus       168 SRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~i---d~eAL~lIA~~A~GsmRdALsLLdQ  223 (830)
T PRK07003        168 SRCLQFNLKQMPAGHIVSHLERILGEERIAF---EPQALRLLARAAQGSMRDALSLTDQ  223 (830)
T ss_pred             hheEEEecCCcCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence                   888999999999888775443222   2677889999998865 45554333

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

Probab=98.41  E-value=5.4e-07  Score=91.22  Aligned_cols=94  Identities=17%  Similarity=0.124  Sum_probs=63.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC--CCHHHHHHHHHH-----HcCCCcccccccChhh
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE--GNLEKIQEVIRK-----KLDISDYIWNMKGEYD  244 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~-----~l~~~~~~~~~~~~~~  244 (863)
                      ..-..++|+|.+|+|||||++.+|+.. . ..+|+.++|+.+...  +++.++++.+..     .++.+... .......
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l-~-~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~-~~~~~~~   90 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAI-T-KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPER-HVQVAEM   90 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc-c-cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHH-HHHHHHH
Confidence            345679999999999999999999987 3 348999999998777  789999999933     33322100 0001111


Q ss_pred             HHHHHHHH-hccCcEEEEEcccccc
Q 038405          245 RAVEILIS-LRRKKFVLLLDDVWER  268 (863)
Q Consensus       245 ~~~~l~~~-l~~k~~LlVlDdv~~~  268 (863)
                      ........ -.+++.++++|++..-
T Consensus        91 ~~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          91 VLEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHHCCCCEEEEEECHHHh
Confidence            11122221 2479999999999753

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.

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

Probab=98.39  E-value=9.6e-08  Score=96.52  Aligned_cols=109  Identities=18%  Similarity=0.144  Sum_probs=62.3

Q ss_pred             CCCccEEEeecccccc----cchhhhhcCCCccEEeccCCc---Cccccchhh-------hcccccceeeccCCCcc---
Q 038405          520 CPHLQTLLVRFTVLEI----FPHRFFESMGALKVLDLSYNL---DLTQLPAEM-------GALINLRCLNLSNTSIE---  582 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~----l~~~~~~~l~~L~~L~Ls~~~---~i~~lp~~i-------~~L~~L~~L~L~~~~i~---  582 (863)
                      ...+..+++++|.+..    .-...+.+.+.|+.-++++-.   ...++|+.+       -.+++|++||||+|-+.   
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g  108 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKG  108 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccc
Confidence            4567777777775432    112235566778888877641   122444432       34567888888887543   


Q ss_pred             --ccchhhhcccCccEEecCCCCCccccchhh-------------hcCCCCCceeeccCcch
Q 038405          583 --ELPSEIMYLKNLKILLLDGMRHFHLIPARV-------------FSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       583 --~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~-------------i~~L~~L~~L~l~~~~~  629 (863)
                        .+-.-+..+..|++|+|.+|. +.....+.             +++-++|+++....|.+
T Consensus       109 ~~~l~~ll~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrl  169 (382)
T KOG1909|consen  109 IRGLEELLSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRL  169 (382)
T ss_pred             hHHHHHHHHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecccc
Confidence              233345667888888888875 33222111             33445666666665543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.38  E-value=2.3e-06  Score=87.00  Aligned_cols=156  Identities=15%  Similarity=0.147  Sum_probs=87.2

Q ss_pred             hhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc
Q 038405          158 ADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW  237 (863)
Q Consensus       158 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  237 (863)
                      .+..++.+.+++.....+.|.|+|.+|+|||+||+.+++...   ......++++++.-.+      ..           
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~~~~------~~-----------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAELAQ------AD-----------   81 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHHHHH------hH-----------
Confidence            455777777776666677899999999999999999998762   2233456665432210      00           


Q ss_pred             cccChhhHHHHHHHHhccCcEEEEEccccccc---ccc-cccccCCC-CCCCeEEEEeecchhhh---------------
Q 038405          238 NMKGEYDRAVEILISLRRKKFVLLLDDVWERL---DLS-KTGVSLSD-CQNGSKIVFTTRSEEVC---------------  297 (863)
Q Consensus       238 ~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~-~~~~~l~~-~~~gs~iivTTr~~~v~---------------  297 (863)
                               ..+.+.+++ .-+||+||++...   .|. .+...+.. ...+.++|+||+.....               
T Consensus        82 ---------~~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~  151 (226)
T TIGR03420        82 ---------PEVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWG  151 (226)
T ss_pred             ---------HHHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcC
Confidence                     011112222 2389999998643   222 23222221 12344788888743211               


Q ss_pred             ----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 ----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 ----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                          +.+++.++-..++...+......   --.+..+.+++.+.|.|..+..+
T Consensus       152 ~~i~l~~l~~~e~~~~l~~~~~~~~~~---~~~~~l~~L~~~~~gn~r~L~~~  201 (226)
T TIGR03420       152 LVFQLPPLSDEEKIAALQSRAARRGLQ---LPDEVADYLLRHGSRDMGSLMAL  201 (226)
T ss_pred             eeEecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhccCCHHHHHHH
Confidence                55666666666665543211111   11445566666666666555443

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

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.37  E-value=4.1e-06  Score=91.05  Aligned_cols=183  Identities=10%  Similarity=0.080  Sum_probs=102.1

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHH---
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRK---  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~---  228 (863)
                      +.++|++..++.+..++..+..+.+.++|+.|+||||+|+.+++...  ...+. ..+++++++-.+  .....+..   
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~--~~~~~~~~~~i~~~~~~~--~~~~~~~~~~~   90 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY--GDPWENNFTEFNVADFFD--QGKKYLVEDPR   90 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc--CcccccceEEechhhhhh--cchhhhhcCcc
Confidence            56899999999999999887767789999999999999999988762  12222 234444432110  00000000   


Q ss_pred             ---HcCCCcccccccChhhHHHHHHHHh------ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh
Q 038405          229 ---KLDISDYIWNMKGEYDRAVEILISL------RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC  297 (863)
Q Consensus       229 ---~l~~~~~~~~~~~~~~~~~~l~~~l------~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~  297 (863)
                         .++....  ......+....+.+..      .+.+-+||+||+....  ....+...+......+++|+||....-.
T Consensus        91 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~  168 (337)
T PRK12402         91 FAHFLGTDKR--IRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKL  168 (337)
T ss_pred             hhhhhhhhhh--hccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhC
Confidence               0000000  0001111222221111      1345589999997542  1222333332233456787777543211


Q ss_pred             ------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 ------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 ------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                                  +.+++.++..+.+...+......   -..+..+.+++.++|.+-.+.
T Consensus       169 ~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~---~~~~al~~l~~~~~gdlr~l~  224 (337)
T PRK12402        169 IPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD---YDDDGLELIAYYAGGDLRKAI  224 (337)
T ss_pred             chhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence                        67788888888887765433222   125678888888888764443

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

Probab=98.36  E-value=6.4e-07  Score=82.38  Aligned_cols=117  Identities=18%  Similarity=0.198  Sum_probs=78.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc--cCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV--NHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      +.+++.|+|.+|+|||++++.+.+.....  ...-..++|+.+....+...+.+.|+++++.....  ..+..+....+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            34689999999999999999999876210  00134677999888889999999999999877531  346677778888


Q ss_pred             HHhccCc-EEEEEcccccc-c--ccccccccCCCCCCCeEEEEeecc
Q 038405          251 ISLRRKK-FVLLLDDVWER-L--DLSKTGVSLSDCQNGSKIVFTTRS  293 (863)
Q Consensus       251 ~~l~~k~-~LlVlDdv~~~-~--~~~~~~~~l~~~~~gs~iivTTr~  293 (863)
                      +.+...+ .+||+|+++.- .  .++.+.... + ..+.++|++.+.
T Consensus        81 ~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEESS
T ss_pred             HHHHhcCCeEEEEeChHhcCCHHHHHHHHHHH-h-CCCCeEEEEECh
Confidence            8887655 49999999874 2  122222221 2 566777776654

>PLN03150 hypothetical protein; Provisional

Probab=98.32  E-value=1.1e-06  Score=102.40  Aligned_cols=106  Identities=25%  Similarity=0.333  Sum_probs=84.1

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCcc-ccchhhhcccCccEEecC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILLLD  600 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L~l~  600 (863)
                      .++.|+|.+|.+....+..++.+++|+.|+|++|.....+|..++.+++|++|+|++|.+. .+|..+++|++|++|+|+
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            3778888888776444444888999999999999444588888999999999999999887 678889999999999999


Q ss_pred             CCCCccccchhhhcC-CCCCceeeccCcc
Q 038405          601 GMRHFHLIPARVFSS-LLSLKVFSLFSTE  628 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~-L~~L~~L~l~~~~  628 (863)
                      +|.....+|.. ++. +.++..+++.+|.
T Consensus       499 ~N~l~g~iP~~-l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        499 GNSLSGRVPAA-LGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCcccccCChH-HhhccccCceEEecCCc
Confidence            99877788877 444 3566777777654

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=3e-05  Score=83.35  Aligned_cols=189  Identities=15%  Similarity=0.183  Sum_probs=117.9

Q ss_pred             cccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          154 KTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      .+.+|+++++++...|..    ....-+.|+|..|+|||+.++.+...........+ +++|.+-...+..+++..|+.+
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHHH
Confidence            477999999999988843    33334899999999999999999998733222232 7899999999999999999999


Q ss_pred             cCCCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccccc--ccccccCCC-CCCCeEEEE--eecchhhh-----
Q 038405          230 LDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERLDL--SKTGVSLSD-CQNGSKIVF--TTRSEEVC-----  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~--~~~~~~l~~-~~~gs~iiv--TTr~~~v~-----  297 (863)
                      ++....  ......+....+.+.+.  ++.+++|||+++....-  +-+-..+.. ...+++|++  .+.+..+.     
T Consensus        97 ~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~  174 (366)
T COG1474          97 LGKVPL--TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDP  174 (366)
T ss_pred             cCCCCC--CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhh
Confidence            963221  23455566666666664  58999999999864222  111111111 112455443  33333322     


Q ss_pred             ------------cccCCHHHHHHHHhHhhC---ccccCCCCChHHHHHHHHHHcC-CChHHHHHH
Q 038405          298 ------------VECLSPEAALDLFRYKVG---EDVFNSHPEIPTLAQAVVGECK-GLPLALITI  346 (863)
Q Consensus       298 ------------l~~L~~~~a~~Lf~~~~~---~~~~~~~~~~~~~~~~i~~~c~-glPLai~~~  346 (863)
                                  ..+.+.+|-.+.+..++.   .... .++..-+++..++..-+ -.-.||..+
T Consensus       175 rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~-~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         175 RVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGV-IDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCC-cCccHHHHHHHHHHHcCccHHHHHHHH
Confidence                        556677777777777663   2222 22333333444444444 344555543

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.31  E-value=3.6e-06  Score=85.34  Aligned_cols=138  Identities=20%  Similarity=0.228  Sum_probs=91.0

Q ss_pred             ccccchhhHHH---HHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLD---EVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +++||.+..+.   -|.++++.+.+..+.+||++|+||||||+.+.+..   +.+  ...||..|..-.-.+-.+.|.++
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~--SyrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKH--SYRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCC--ceEEEEEeccccchHHHHHHHHH
Confidence            34566554432   34556677889999999999999999999999876   222  25677777664444444444443


Q ss_pred             cCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEE--eecchhhh----------
Q 038405          230 LDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVF--TTRSEEVC----------  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iiv--TTr~~~v~----------  297 (863)
                      ...                 ...+.++|..|.+|.|..-..-+. ...+|.-.+|+-++|  ||.++..-          
T Consensus       213 aq~-----------------~~~l~krkTilFiDEiHRFNksQQ-D~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~  274 (554)
T KOG2028|consen  213 AQN-----------------EKSLTKRKTILFIDEIHRFNKSQQ-DTFLPHVENGDITLIGATTENPSFQLNAALLSRCR  274 (554)
T ss_pred             HHH-----------------HHhhhcceeEEEeHHhhhhhhhhh-hcccceeccCceEEEecccCCCccchhHHHHhccc
Confidence            211                 113457899999999975322111 123566667877776  78777653          


Q ss_pred             ---cccCCHHHHHHHHhHh
Q 038405          298 ---VECLSPEAALDLFRYK  313 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~  313 (863)
                         +++|+.++-..++.+.
T Consensus       275 VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  275 VFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             eeEeccCCHHHHHHHHHHH
Confidence               8899999998888774

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=8.8e-06  Score=91.21  Aligned_cols=184  Identities=14%  Similarity=0.120  Sum_probs=101.9

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhcccccc--CCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVN--HCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +++||-+..++.|.+++..+++. .+.++|..|+||||+|+.+.+...-..  ....    +. +..+..-...+.|...
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g----~~-~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG----IT-AQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc----CC-CCCCcccHHHHHHHcC
Confidence            56899999999999999876654 568999999999999999887652100  0000    00 0001101111111110


Q ss_pred             cCCCcccc---cccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE-eecchhhh-
Q 038405          230 LDISDYIW---NMKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF-TTRSEEVC-  297 (863)
Q Consensus       230 l~~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv-TTr~~~v~-  297 (863)
                      -.......   .....++... +.+.     ..++.-++|+|+++..  ..+..+...+-....+.++|+ ||....+. 
T Consensus        91 ~hpDviEIdAas~~gVDdIRe-Lie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlp  169 (700)
T PRK12323         91 RFVDYIEMDAASNRGVDEMAQ-LLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPV  169 (700)
T ss_pred             CCCcceEecccccCCHHHHHH-HHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhh
Confidence            00000000   0011122111 2121     1356679999999864  334445444433334555554 44444443 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                                ++.++.++..+.+.+.+......   ...+..+.|++.++|.|.-...
T Consensus       170 TIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~---~d~eAL~~IA~~A~Gs~RdALs  224 (700)
T PRK12323        170 TVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA---HEVNALRLLAQAAQGSMRDALS  224 (700)
T ss_pred             HHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence                      88899999988888766433221   1245668899999999864443

>PLN03025 replication factor C subunit; Provisional

Probab=98.31  E-value=4.9e-06  Score=89.07  Aligned_cols=168  Identities=14%  Similarity=0.137  Sum_probs=98.8

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.++.++.+..++..+..+-+.++|++|+||||+|+.+++...  ...|. .++-+..++..+...+ +.+++.+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~~v-r~~i~~~~   89 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGIDVV-RNKIKMFA   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHHHH-HHHHHHHH
Confidence            56889999999998888877777788999999999999999988752  12232 1222233333222222 22221110


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------  297 (863)
                      ....   .            .-.++.-++|+|+++...  ....+...+......+++|+++....-.            
T Consensus        90 ~~~~---~------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~  154 (319)
T PLN03025         90 QKKV---T------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVR  154 (319)
T ss_pred             hccc---c------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhccc
Confidence            0000   0            001356689999998642  2222322222223456777766543211            


Q ss_pred             cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          298 VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      +++++.++..+.+...+.......+   .+....|++.++|-.-
T Consensus       155 f~~l~~~~l~~~L~~i~~~egi~i~---~~~l~~i~~~~~gDlR  195 (319)
T PLN03025        155 FSRLSDQEILGRLMKVVEAEKVPYV---PEGLEAIIFTADGDMR  195 (319)
T ss_pred             CCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHH
Confidence            7778888888888776643332221   5667888888888663

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=1.4e-05  Score=86.89  Aligned_cols=179  Identities=16%  Similarity=0.137  Sum_probs=100.0

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.+..++.+.+.+..+.. ..+.++|+.|+||||+|+.+++... ......       ..++..-....++.....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~-c~~~~~-------~~pc~~c~~c~~~~~~~~   87 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN-CQNGIT-------SNPCRKCIICKEIEKGLC   87 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCCCHHHHHHhcCCC
Confidence            5689999999999999977654 4678999999999999999987651 100000       000000001111111000


Q ss_pred             CCcccc--c-ccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchh-hh---
Q 038405          232 ISDYIW--N-MKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEE-VC---  297 (863)
Q Consensus       232 ~~~~~~--~-~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~-v~---  297 (863)
                      ......  . ....++ ...+.+.+     .+++-++|+|+++...  .+..+...+.......++|++|.+.. +.   
T Consensus        88 ~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI  166 (363)
T PRK14961         88 LDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTI  166 (363)
T ss_pred             CceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHH
Confidence            000000  0 001111 12222222     2455689999998653  34445444444445667777665432 21   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                              +.+++.++..+.+...+......   -.++.+..|++.++|.|-.+
T Consensus       167 ~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~---i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        167 LSRCLQFKLKIISEEKIFNFLKYILIKESID---TDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             HhhceEEeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHH
Confidence                    78889998888877755332211   12567788999999987533

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=8.5e-06  Score=94.47  Aligned_cols=168  Identities=15%  Similarity=0.159  Sum_probs=101.9

Q ss_pred             ccccchhhHHHHHHHhhccCCceE-EEEEcCCCChHHHHhhhhhhccccccCC-------------------CCEEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQT-IGLYGMGGVGKITLLKKPNNKFLDVNHC-------------------FDLVIFVA  212 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~v-i~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~wv~  212 (863)
                      .++||-+..++.|.+++..+++.- +.++|..|+||||+|+.+++... -...                   |.-++++.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Ln-ce~~~~~~pCg~C~sC~~i~~g~~~DviEid   94 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLN-CEQGVTATPCGVCSSCVEIAQGRFVDLIEVD   94 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhcc-CccCCCCCCCCCchHHHHHhcCCCceEEEec
Confidence            568999999999999998776654 58999999999999999998762 1111                   11111111


Q ss_pred             eCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE
Q 038405          213 VSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF  289 (863)
Q Consensus       213 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv  289 (863)
                      ......+..+ +.|.                   ..+.. -..+++-++|+|++...  .....+...+-......++|+
T Consensus        95 Aas~~kVDdI-ReLi-------------------e~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFIL  154 (944)
T PRK14949         95 AASRTKVDDT-RELL-------------------DNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLL  154 (944)
T ss_pred             cccccCHHHH-HHHH-------------------HHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            1110111111 1111                   11111 12467789999999864  334444444433334556665


Q ss_pred             eecch-hhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          290 TTRSE-EVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       290 TTr~~-~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                      +|.+. .+.           +++++.++..+.+.+.+.....   .-..+....|++.++|.|--+.
T Consensus       155 aTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI---~~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        155 ATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL---PFEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             ECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence            55443 332           8899999999888876643221   1225678899999999885333

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.28  E-value=1.6e-05  Score=85.69  Aligned_cols=168  Identities=13%  Similarity=0.162  Sum_probs=99.9

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe--CCCCCHHHHHHHHHHHc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV--SKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~i~~~l  230 (863)
                      .+++|+++.++.+..++.....+.+.|+|..|+||||+|+.+++...  ...+. ..++.+  +.......+...+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~--~~~~~-~~~i~~~~~~~~~~~~~~~~i~~~~   93 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY--GEDWR-ENFLELNASDERGIDVIRNKIKEFA   93 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc--CCccc-cceEEeccccccchHHHHHHHHHHH
Confidence            56889999999999999887777789999999999999999998752  12221 122322  22222221111111111


Q ss_pred             CCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchh-hh----------
Q 038405          231 DISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEE-VC----------  297 (863)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~-v~----------  297 (863)
                      ....                 .....+-++++|+++...  ....+...+......+++|+++.... +.          
T Consensus        94 ~~~~-----------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         94 RTAP-----------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             hcCC-----------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            0000                 001235689999986532  22333333333334567777664322 11          


Q ss_pred             -cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 -VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 -l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                       +.+++.++....+...+.......   .++....+++.++|.+--+
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~i---~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIEI---TDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence             778888888888877664333211   2567888999999987543

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.27  E-value=1.5e-06  Score=85.36  Aligned_cols=45  Identities=22%  Similarity=0.437  Sum_probs=32.6

Q ss_pred             cccchhhHHHHHHHhh---ccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCI---EDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L---~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .||||+++++++...+   .....+.+.|+|.+|+|||+|+++++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3799999999999999   23557899999999999999999999887

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.25  E-value=1.9e-06  Score=90.13  Aligned_cols=283  Identities=21%  Similarity=0.184  Sum_probs=176.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ..+-+.++|.|||||||++-.+.. .   ...| +.+.++....-.+...+.-.....++.+.     .+-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-----~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-----QPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhccccc-----ccchHHHHHHHH
Confidence            457899999999999999999988 4   3445 56777777777777777777777777654     222344556677


Q ss_pred             HhccCcEEEEEcccccccc-cccccccCCCCCCCeEEEEeecchhhh-------cccCCHH-HHHHHHhHhhCcc--ccC
Q 038405          252 SLRRKKFVLLLDDVWERLD-LSKTGVSLSDCQNGSKIVFTTRSEEVC-------VECLSPE-AALDLFRYKVGED--VFN  320 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~~~~~-~~~~~~~l~~~~~gs~iivTTr~~~v~-------l~~L~~~-~a~~Lf~~~~~~~--~~~  320 (863)
                      +..++|.++|+||..+..+ -......+......-.|+.|+|.....       +.+|+.. ++.++|...+...  .+.
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~  163 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFW  163 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhcccee
Confidence            7889999999999865422 111122222333445688888876544       6666654 7889988776422  222


Q ss_pred             CCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHH----HHHHhcCCCccC-CCCccccchhhcccCCCChhh
Q 038405          321 SHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYV----IDELQRNPSRFA-GMGNLVFPILRFSYDNLTDDT  395 (863)
Q Consensus       321 ~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~----~~~l~~~~~~~~-~~~~~i~~~l~~sy~~L~~~~  395 (863)
                      ..........+|.++..|.|++|...++..+. ....+--..    ...+... .... -......+.+.+||.-|..- 
T Consensus       164 l~~~~~a~v~~icr~ldg~~laielaaarv~s-l~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgw-  240 (414)
T COG3903         164 LTDDNAAAVAEICRRLDGIPLAIELAAARVRS-LSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGW-  240 (414)
T ss_pred             ecCCchHHHHHHHHHhhcchHHHHHHHHHHHh-cCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhH-
Confidence            33445778899999999999999999998877 333322211    1112221 1110 01125678899999999885 


Q ss_pred             HhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHHHHHHHHhcccccCCC-CCCeEEechHHHHHHH
Q 038405          396 LKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEY-SEDFVKMHDVVRDMAL  474 (863)
Q Consensus       396 ~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~-~~~~~~mHdlv~d~~~  474 (863)
                      .+.-|--++.|...+...    ...|.+.|-....     ........+..+++++++..... ....++.-+-++.|+.
T Consensus       241 e~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~~-----~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~Yal  311 (414)
T COG3903         241 ERALFGRLAVFVGGFDLG----LALAVAAGADVDV-----PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYAL  311 (414)
T ss_pred             HHHHhcchhhhhhhhccc----HHHHHhcCCcccc-----chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            888899999988766544    2344444432211     22233444667777777764431 1223444444555554


Q ss_pred             Hh
Q 038405          475 WL  476 (863)
Q Consensus       475 ~i  476 (863)
                      ..
T Consensus       312 ae  313 (414)
T COG3903         312 AE  313 (414)
T ss_pred             HH
Confidence            33

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=1.4e-05  Score=89.91  Aligned_cols=180  Identities=13%  Similarity=0.083  Sum_probs=101.6

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .++||.+..++.|.+++..+.. ..+.++|+.|+||||+|+.+++... -..      ++.. ..++.-...+.|...-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln-C~~------~~~~-~pCg~C~sC~~I~~g~h   86 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN-CET------GVTS-TPCEVCATCKAVNEGRF   86 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCc------CCCC-CCCccCHHHHHHhcCCC
Confidence            5689999999999999987654 5778999999999999999987651 101      0000 00010011111111000


Q ss_pred             CCcccc---cccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh-hh---
Q 038405          232 ISDYIW---NMKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE-VC---  297 (863)
Q Consensus       232 ~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~-v~---  297 (863)
                      ......   .....++. ..+...     ..+++-++|+|+|...  .....+...+.....+.++|++|.+.. +.   
T Consensus        87 pDviEIDAAs~~~VddI-Reli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TI  165 (702)
T PRK14960         87 IDLIEIDAASRTKVEDT-RELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITV  165 (702)
T ss_pred             CceEEecccccCCHHHH-HHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHH
Confidence            000000   00111111 112111     2356678999999864  234444444433344567777776532 21   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                              +++++.++..+.+...+......   -..+....|++.++|.+-.+.
T Consensus       166 lSRCq~feFkpLs~eEI~k~L~~Il~kEgI~---id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        166 ISRCLQFTLRPLAVDEITKHLGAILEKEQIA---ADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             HHhhheeeccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence                    78899999888887776443321   225677889999999774433

>PRK08727 hypothetical protein; Validated

Probab=98.24  E-value=1.3e-05  Score=81.36  Aligned_cols=158  Identities=15%  Similarity=0.084  Sum_probs=87.6

Q ss_pred             ccccch-hhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGA-DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr-~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +.|++. ...+..+.....+.....+.|+|..|+|||+|++.+++...   .....+.|+++.+      ....+.    
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~------~~~~~~----   85 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA------AAGRLR----   85 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH------hhhhHH----
Confidence            345543 33444444444344445699999999999999999988762   2223556665322      111111    


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc---cccc-ccccCCC-CCCCeEEEEeecchhhh---------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL---DLSK-TGVSLSD-CQNGSKIVFTTRSEEVC---------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~~-~~~~l~~-~~~gs~iivTTr~~~v~---------  297 (863)
                                      ...+.+ .+.-+||+||+....   .|.. +...+.. ..+|..||+||+...-.         
T Consensus        86 ----------------~~~~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         86 ----------------DALEAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             ----------------HHHHHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHH
Confidence                            011122 133589999997432   2322 2111111 12466799999864332         


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                                +++++.++-.+++.+.+.......   -++...-|++.+.|-.-++
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l---~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRRGLAL---DEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhCCCCHHHH
Confidence                      667777777777776554322211   2556677777777655433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2e-05  Score=88.48  Aligned_cols=188  Identities=14%  Similarity=0.059  Sum_probs=106.9

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|-+..++.|..++..+... .+.++|++|+||||+|+.+++... ..+.+...+|.|.+.. .+.......+..++
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~-c~~~~~~~cg~C~sc~-~i~~~~h~dv~el~   91 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN-CSGEDPKPCGECESCL-AVRRGAHPDVLEID   91 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh-ccCCCCCCCCcChhhH-HHhcCCCCceEEec
Confidence            56899999999999999776654 569999999999999999988762 1122222333332110 00000000000000


Q ss_pred             CCcccccccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc-hhhh------
Q 038405          232 ISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS-EEVC------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~-~~v~------  297 (863)
                      ..    .....+ .+..+.+.+     .+++-++|+|+++..  ..+..+...+........+|++|.. ..+.      
T Consensus        92 ~~----~~~~vd-~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         92 AA----SNNSVE-DVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             cc----ccCCHH-HHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            00    001111 122222222     246678999999754  3355555555443445555555543 3332      


Q ss_pred             -----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHHHHHH
Q 038405          298 -----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITIARAM  350 (863)
Q Consensus       298 -----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~l  350 (863)
                           +.+++.++..+.+...+.......   ..+....|++.++|.+- |+..+-..+
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~i---~~~Al~~ia~~s~GdlR~aln~Lekl~  222 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGREA---EPEALQLVARLADGAMRDAESLLERLL  222 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence                 788999999999988765433221   25678899999999885 443433333

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

Probab=98.22  E-value=2.3e-07  Score=103.28  Aligned_cols=121  Identities=30%  Similarity=0.348  Sum_probs=69.2

Q ss_pred             EEEeccCCccccCC-CC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          504 RLSLWGSSIEYLPE-TP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       504 ~l~l~~~~~~~l~~-~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      .+++..+.+..... .. +.+|..|++.+|.+..+... +..+++|++|++++| .|..+.. +..+..|+.|++++|.|
T Consensus        76 ~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~N-~I~~i~~-l~~l~~L~~L~l~~N~i  152 (414)
T KOG0531|consen   76 ELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSFN-KITKLEG-LSTLTLLKELNLSGNLI  152 (414)
T ss_pred             hhccchhhhhhhhcccccccceeeeeccccchhhcccc-hhhhhcchheecccc-ccccccc-hhhccchhhheeccCcc
Confidence            33444455544222 22 66667777777666655542 455667777777776 5555543 55666677777777766


Q ss_pred             cccchhhhcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcchh
Q 038405          582 EELPSEIMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       582 ~~lP~~i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ..++ .+..+++|+.+++++|. +..++. . ...+.+|+.+.+.+|.+.
T Consensus       153 ~~~~-~~~~l~~L~~l~l~~n~-i~~ie~~~-~~~~~~l~~l~l~~n~i~  199 (414)
T KOG0531|consen  153 SDIS-GLESLKSLKLLDLSYNR-IVDIENDE-LSELISLEELDLGGNSIR  199 (414)
T ss_pred             hhcc-CCccchhhhcccCCcch-hhhhhhhh-hhhccchHHHhccCCchh
Confidence            6654 24446666777776665 444433 1 245666666666665443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2e-05  Score=87.74  Aligned_cols=176  Identities=17%  Similarity=0.156  Sum_probs=100.2

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccC-C-----------------CCEEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNH-C-----------------FDLVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~-----------------F~~~~wv~~  213 (863)
                      +++||.+.....+...+..+.. ..+.++|++|+||||+|+.+++....... .                 +.....+..
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~a   93 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDA   93 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeC
Confidence            5689999988888888877766 45789999999999999999876511000 0                 001112222


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEee
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTT  291 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTT  291 (863)
                      +...+...+ ++|.+....                  .-..+++-++|+|+++..  .....+...+........+|++|
T Consensus        94 a~~~gid~i-R~i~~~~~~------------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilat  154 (472)
T PRK14962         94 ASNRGIDEI-RKIRDAVGY------------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLAT  154 (472)
T ss_pred             cccCCHHHH-HHHHHHHhh------------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEe
Confidence            111111111 111111100                  012245679999999753  23334433333323344555454


Q ss_pred             cc-hhhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHHHHHH
Q 038405          292 RS-EEVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITIARAM  350 (863)
Q Consensus       292 r~-~~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~~~l  350 (863)
                      .+ ..+.           +.+++.++....+...+.......   .++....|++.++|- +.|+..+-.+.
T Consensus       155 tn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i---~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        155 TNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEI---DREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             CChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            43 2222           688999998888887764322211   256778888877654 66766665544

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

Probab=98.20  E-value=2.1e-07  Score=94.14  Aligned_cols=247  Identities=18%  Similarity=0.126  Sum_probs=132.6

Q ss_pred             hhcCCCccEEeccCCcCcc----ccchhhhcccccceeeccCCC----ccccchhh-------hcccCccEEecCCCCCc
Q 038405          541 FESMGALKVLDLSYNLDLT----QLPAEMGALINLRCLNLSNTS----IEELPSEI-------MYLKNLKILLLDGMRHF  605 (863)
Q Consensus       541 ~~~l~~L~~L~Ls~~~~i~----~lp~~i~~L~~L~~L~L~~~~----i~~lP~~i-------~~L~~L~~L~l~~~~~l  605 (863)
                      ...+..+..|+||+|..-.    .+-..+.+.++|+.-++++-.    ..++|+.+       -.+++|+.|+|++|..-
T Consensus        26 ~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G  105 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFG  105 (382)
T ss_pred             hcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccC
Confidence            4567889999999994333    234456677889999988641    23556543       45679999999999754


Q ss_pred             cccch---hhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEE
Q 038405          606 HLIPA---RVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRL  682 (863)
Q Consensus       606 ~~lp~---~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L  682 (863)
                      ...+.   ..+.++++|++|.+.+|.+.......  -...|.+|...+ .                    ....+.|+.+
T Consensus       106 ~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~--l~~al~~l~~~k-k--------------------~~~~~~Lrv~  162 (382)
T KOG1909|consen  106 PKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGR--LGRALFELAVNK-K--------------------AASKPKLRVF  162 (382)
T ss_pred             ccchHHHHHHHHhccCHHHHhhhcCCCChhHHHH--HHHHHHHHHHHh-c--------------------cCCCcceEEE
Confidence            44433   34678999999999988753211000  111233333221 0                    1122356666


Q ss_pred             EecccCCccccc------ccccCCcceeEeccCcccccC--CCCCCCCCCCCCCEEEEecCCCCCCC-----cccccCCC
Q 038405          683 TIMHNLDSHSID------LRNMMHLETLNIVECSLERVD--PTFNGWTNFHNLHHLSIRVCPVIRDL-----TWIREAPN  749 (863)
Q Consensus       683 ~l~~~~~~~~~~------l~~~~~L~~L~l~~~~l~~~~--~~~~~~~~l~~L~~L~L~~~~~~~~l-----~~l~~l~~  749 (863)
                      ....|.......      +..++.|+.+.+..|.+..-.  .....+..+++|+.|+|..|.....-     ..+..+|+
T Consensus       163 i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~  242 (382)
T KOG1909|consen  163 ICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPH  242 (382)
T ss_pred             EeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccch
Confidence            655554433221      555666777777666543211  11113445667777777766543221     23455666


Q ss_pred             cceEeeccCcchhhhhcccCCccc-cccCccCcccceeccccccccc----ccccCccCCCCccEEeeccC
Q 038405          750 LQFLSLVNCQALSEIIESAGSSEV-AESHNYFAYLMVIDLDSLPSLK----RICHGTMPFPSLQNVSVTNC  815 (863)
Q Consensus       750 L~~L~L~~~~~l~~i~~~~~~~~~-~~~~~~~~~L~~L~L~~~~~L~----~l~~~~~~~~~L~~L~i~~C  815 (863)
                      |+.|++++|..-..     |...+ ..-...+|+|+.|.+.++.--.    .+.......|.|..|.+.+|
T Consensus       243 L~El~l~dcll~~~-----Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  243 LRELNLGDCLLENE-----GAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGN  308 (382)
T ss_pred             heeecccccccccc-----cHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcc
Confidence            77777776652111     11000 0112336666666665542111    11112223566666666665

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=1.5e-05  Score=87.22  Aligned_cols=177  Identities=11%  Similarity=0.037  Sum_probs=100.3

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.+..+..|..++..+.+. .+.++|+.|+||||+|+.+++... -......   ..+.....    ...+.....
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln-ce~~~~~---~pCg~C~s----C~~i~~g~~   89 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN-CENPIGN---EPCNECTS----CLEITKGIS   89 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC-cccccCc---cccCCCcH----HHHHHccCC
Confidence            56899999999999999887754 589999999999999999988762 1110000   00011101    111211111


Q ss_pred             CCccccc---ccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEee-cchhhh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTT-RSEEVC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTT-r~~~v~---  297 (863)
                      .......   ....+ .+..+.+.     ..++.-++|+|+++..  ..+..+...+-.......+|++| ....+.   
T Consensus        90 ~dviEIdaas~~gVd-~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI  168 (484)
T PRK14956         90 SDVLEIDAASNRGIE-NIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETI  168 (484)
T ss_pred             ccceeechhhcccHH-HHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHH
Confidence            0000000   01111 12222222     2356679999999854  34555544443333345545444 433332   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                              +.+++.++..+.+...+......   -..+....|++.++|.+-
T Consensus       169 ~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~---~e~eAL~~Ia~~S~Gd~R  217 (484)
T PRK14956        169 LSRCQDFIFKKVPLSVLQDYSEKLCKIENVQ---YDQEGLFWIAKKGDGSVR  217 (484)
T ss_pred             HhhhheeeecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCChHH
Confidence                    78888888888887766433221   125677889999999874

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=2.5e-05  Score=88.74  Aligned_cols=168  Identities=13%  Similarity=0.163  Sum_probs=98.3

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCC-------------------CCEEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHC-------------------FDLVIFVA  212 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~wv~  212 (863)
                      .++||.+..+..|.+++..+++ ..+.++|..|+||||+|+.+++... -...                   |-..+.+.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln-C~~~~~~~pCg~C~sCr~i~~g~~~DvlEid   94 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN-CENAQHGEPCGVCQSCTQIDAGRYVDLLEID   94 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc-ccCCCCCCCCcccHHHHHHhccCccceEEEe
Confidence            5689999999999999987664 4689999999999999999887641 1100                   10111111


Q ss_pred             eCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEcccccccc--cccccccCCCCCCCeEEEE
Q 038405          213 VSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERLD--LSKTGVSLSDCQNGSKIVF  289 (863)
Q Consensus       213 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~iiv  289 (863)
                      ......+.. .+++++                   .... -..+++-++|+|++.....  ...+...+......+++|+
T Consensus        95 aAs~~gVd~-IRelle-------------------~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fIL  154 (709)
T PRK08691         95 AASNTGIDN-IREVLE-------------------NAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFIL  154 (709)
T ss_pred             ccccCCHHH-HHHHHH-------------------HHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEE
Confidence            111111111 011111                   1000 0235667899999975432  3333333322234556666


Q ss_pred             eecchh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          290 TTRSEE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       290 TTr~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                      +|.+.. +.           +.+++.++....+.+.+.......   ..+....|++.++|.+--+.
T Consensus       155 aTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i---d~eAL~~Ia~~A~GslRdAl  218 (709)
T PRK08691        155 ATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY---EPPALQLLGRAAAGSMRDAL  218 (709)
T ss_pred             EeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc---CHHHHHHHHHHhCCCHHHHH
Confidence            665432 22           678889888888877664433221   25677889999998874333

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.18  E-value=1e-05  Score=94.42  Aligned_cols=158  Identities=21%  Similarity=0.215  Sum_probs=92.2

Q ss_pred             ccccchhhHHH---HHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLD---EVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      ++++|.+..+.   .+...+..+....+.++|++|+||||||+.+++..   ...|.   .+..+. .....        
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~---~lna~~-~~i~d--------   92 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFS---SLNAVL-AGVKD--------   92 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcce---eehhhh-hhhHH--------
Confidence            56889988774   46667777777788999999999999999999876   34441   111110 00000        


Q ss_pred             cCCCcccccccChhhHHHHHHHHh--ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE--eecchhh-------
Q 038405          230 LDISDYIWNMKGEYDRAVEILISL--RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF--TTRSEEV-------  296 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv--TTr~~~v-------  296 (863)
                                  ..+......+.+  .+++.+|||||++.-  ...+.+...+   ..|+.++|  ||.+...       
T Consensus        93 ------------ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~  157 (725)
T PRK13341         93 ------------LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALV  157 (725)
T ss_pred             ------------HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhh
Confidence                        111111121222  246779999999753  2333333222   33555555  3444321       


Q ss_pred             ------hcccCCHHHHHHHHhHhhCccc----cCCCCChHHHHHHHHHHcCCCh
Q 038405          297 ------CVECLSPEAALDLFRYKVGEDV----FNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       297 ------~l~~L~~~~a~~Lf~~~~~~~~----~~~~~~~~~~~~~i~~~c~glP  340 (863)
                            .+++++.++...++...+....    .....-.++....|++.+.|.-
T Consensus       158 SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~  211 (725)
T PRK13341        158 SRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDA  211 (725)
T ss_pred             ccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCH
Confidence                  1888999999999887654100    0011112566788888888764

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=2.6e-05  Score=87.68  Aligned_cols=175  Identities=17%  Similarity=0.153  Sum_probs=101.0

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc------------------CCCCEEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN------------------HCFDLVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~  213 (863)
                      .+++|-+..++.+...+..+.. ..+.++|+.|+||||+|+.+++......                  +.|...+++..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieida   95 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDA   95 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeec
Confidence            5688999999999999977654 4578999999999999999987541100                  01112222222


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEe
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFT  290 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivT  290 (863)
                      .....++++                    .+....+.. -..+++-++|+|++...  ..+..+...+-.....+++|++
T Consensus        96 as~~gvd~i--------------------r~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~  155 (546)
T PRK14957         96 ASRTGVEET--------------------KEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILA  155 (546)
T ss_pred             ccccCHHHH--------------------HHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEE
Confidence            111111111                    111111111 12356779999999754  2344444444433445666654


Q ss_pred             ecch-hhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHHHHH
Q 038405          291 TRSE-EVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIARAM  350 (863)
Q Consensus       291 Tr~~-~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l  350 (863)
                      |.+. .+.           +++++.++..+.+...+.....   .-..+....|++.++|.+ -|+..+-.++
T Consensus       156 Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi---~~e~~Al~~Ia~~s~GdlR~alnlLek~i  225 (546)
T PRK14957        156 TTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI---NSDEQSLEYIAYHAKGSLRDALSLLDQAI  225 (546)
T ss_pred             ECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            4433 222           7888888887777765433221   122566778899999866 4544444333

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.17  E-value=2.8e-06  Score=89.47  Aligned_cols=99  Identities=18%  Similarity=0.212  Sum_probs=65.3

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC--CHHHHHHHHHHHcCCCcccccccC
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG--NLEKIQEVIRKKLDISDYIWNMKG  241 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~  241 (863)
                      +++++.. ..-.-.+|+|++|+||||||+.+|+...  ..+|+.++||.+.+.+  .+.++++.|...+-...  ++...
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~--~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st--~d~~~  234 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSIT--TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAST--FDEPA  234 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHHH--hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEEC--CCCCH
Confidence            4444432 3345689999999999999999999873  3489999999999887  77888888863221111  01111


Q ss_pred             hh-----hHHHHHHHH--hccCcEEEEEccccc
Q 038405          242 EY-----DRAVEILIS--LRRKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~-----~~~~~l~~~--l~~k~~LlVlDdv~~  267 (863)
                      ..     ..+....++  -.+++++|++|++..
T Consensus       235 ~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        235 ERHVQVAEMVIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHH
Confidence            00     111122222  257999999999964

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=4.3e-05  Score=85.43  Aligned_cols=183  Identities=14%  Similarity=0.053  Sum_probs=102.6

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCE-EEEEEeCCCCCHHHHHHHHHHHc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDL-VIFVAVSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~~l  230 (863)
                      .++||-+..+..+...+..+.. ..+.++|+.|+||||+|+.+++... -...... --+.    .+..-.....|....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln-c~~~~~~~~~~~----~C~~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN-CSALITENTTIK----TCEQCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc-CccccccCcCcC----CCCCChHHHHHhcCC
Confidence            5688999999999988876554 5788999999999999999988761 1111000 0000    000001111111100


Q ss_pred             CCCcccc---cccChhhHHHHHHH----HhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE-eecchhhh---
Q 038405          231 DISDYIW---NMKGEYDRAVEILI----SLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF-TTRSEEVC---  297 (863)
Q Consensus       231 ~~~~~~~---~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv-TTr~~~v~---  297 (863)
                      .......   .....++....+..    -+.+++-++|+|+++..  ..+..+...+......+.+|+ ||+...+.   
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI  175 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATI  175 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHH
Confidence            0000000   00111221111111    12356778999999864  345556555544445666665 44444443   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                              +.+++.++..+.+...+.......   ..+....|++.++|.+--+
T Consensus       176 ~SRc~~~ef~~ls~~el~~~L~~i~~~egi~i---e~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        176 ISRCQRYDLRRLSFEEIFKLLEYITKQENLKT---DIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HhcceEEEccCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence                    788999999999988775433211   2566788999999977433

>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=98.16  E-value=2.7e-05  Score=75.59  Aligned_cols=159  Identities=16%  Similarity=0.176  Sum_probs=81.8

Q ss_pred             ccccchhhHHHHHHHhhc-----cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIE-----DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      ++|||.+..++.+.-++.     ++...-+-+||++|+||||||.-+++..   ...|.   +.+...-....++ ..++
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~---~~sg~~i~k~~dl-~~il   96 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFK---ITSGPAIEKAGDL-AAIL   96 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EE---EEECCC--SCHHH-HHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeE---eccchhhhhHHHH-HHHH
Confidence            679999998888665553     2456789999999999999999999987   34442   2221110011111 1111


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc---------cccccccc-CCCCC-----------CCeE
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL---------DLSKTGVS-LSDCQ-----------NGSK  286 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------~~~~~~~~-l~~~~-----------~gs~  286 (863)
                      ..                       + +++-+|.+|.+..-.         ..++.... .-..+           +=+-
T Consensus        97 ~~-----------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   97 TN-----------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             HT--------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             Hh-----------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence            11                       2 133455666665311         00100000 00011           1123


Q ss_pred             EEEeecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          287 IVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       287 iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      |=.|||.-.+.            ++..+.+|-.++..+.+..-...   -.++.+.+|++.|.|-|--+.-
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~---i~~~~~~~Ia~rsrGtPRiAnr  220 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIE---IDEDAAEEIARRSRGTPRIANR  220 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-E---E-HHHHHHHHHCTTTSHHHHHH
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCC---cCHHHHHHHHHhcCCChHHHHH
Confidence            44678775554            67788888888888766432221   2268899999999999954443

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=98.16  E-value=3.2e-05  Score=86.98  Aligned_cols=184  Identities=12%  Similarity=0.071  Sum_probs=98.3

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.+..++.+.+++..+.. +.+.++|+.|+||||+|+.+++... -.+      |... ..++.-...+.+.....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~-C~~------~~~~-~~Cg~C~sCr~i~~~~h   87 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAIN-CLN------PKDG-DCCNSCSVCESINTNQS   87 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc-CCC------CCCC-CCCcccHHHHHHHcCCC
Confidence            5689999999999999976554 4688999999999999999987751 111      1110 01111111111111100


Q ss_pred             CCccccc---ccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecch-hhh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSE-EVC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~-~v~---  297 (863)
                      .......   ....++ ...+.+.     ..+++-++|+|+++..  ..+..+...+......+.+|++|... .+.   
T Consensus        88 ~DiieIdaas~igVd~-IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI  166 (605)
T PRK05896         88 VDIVELDAASNNGVDE-IRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTI  166 (605)
T ss_pred             CceEEeccccccCHHH-HHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHH
Confidence            0000000   011111 1111111     1234457999999753  33444444443333455665555332 221   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITIAR  348 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~  348 (863)
                              +.+++.++....+...+.......   ..+.+..+++.++|.+- |+..+-.
T Consensus       167 ~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~I---s~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        167 ISRCQRYNFKKLNNSELQELLKSIAKKEKIKI---EDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HhhhhhcccCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCcHHHHHHHHHH
Confidence                    777888888877777654322111   15567888889988653 4444443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.15  E-value=4.7e-05  Score=82.02  Aligned_cols=186  Identities=13%  Similarity=0.040  Sum_probs=103.6

Q ss_pred             CCccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhcccccc-CCCCE-EE-EEEeCCCCCHHHHHHHH
Q 038405          151 ATEKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVN-HCFDL-VI-FVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       151 ~~~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~-~~-wv~~~~~~~~~~~~~~i  226 (863)
                      ...+++|.+..++.+.+.+..+.+. .+.++|+.|+||+|+|..+++...-.. ...+. .. -.+.. ....-...+.|
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~-~~~~c~~c~~i   95 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLA-IDPDHPVARRI   95 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCcccccccccc-CCCCChHHHHH
Confidence            3467899999999999999887654 589999999999999988877652110 00000 00 00000 00000111111


Q ss_pred             HHHcCCCccc-c------------cccChhhHHHHHHHHhc-----cCcEEEEEcccccc--cccccccccCCCCCCCeE
Q 038405          227 RKKLDISDYI-W------------NMKGEYDRAVEILISLR-----RKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSK  286 (863)
Q Consensus       227 ~~~l~~~~~~-~------------~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~  286 (863)
                      .. -..++.. .            .....++ +..+.+.+.     +.+-++|+||++..  .....+...+.....++.
T Consensus        96 ~~-~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~  173 (365)
T PRK07471         96 AA-GAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSL  173 (365)
T ss_pred             Hc-cCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeE
Confidence            11 0000000 0            0011122 333334332     46778999999754  233344333433334566


Q ss_pred             EEEeecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          287 IVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       287 iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      +|++|.+..-.            +.+++.++..+.+.......      . .+....++..++|.|..+..+
T Consensus       174 ~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~------~-~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        174 FLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL------P-DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC------C-HHHHHHHHHHcCCCHHHHHHH
Confidence            77776655322            88999999999988754221      1 222378899999999866544

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=4.6e-05  Score=82.85  Aligned_cols=161  Identities=13%  Similarity=0.095  Sum_probs=95.9

Q ss_pred             ccccchhhHHHHHHHhhccCC----------ceEEEEEcCCCChHHHHhhhhhhcccccc------------------CC
Q 038405          153 EKTVGADSKLDEVWGCIEDQS----------EQTIGLYGMGGVGKITLLKKPNNKFLDVN------------------HC  204 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~  204 (863)
                      ++++|-+..++.+.+++..+.          ...+.++|+.|+||||+|+.++....-..                  .|
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            457899999999999997643          45688999999999999999876541000                  11


Q ss_pred             CCEEEEEEeC-CCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccc
Q 038405          205 FDLVIFVAVS-KEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGV  276 (863)
Q Consensus       205 F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~  276 (863)
                      .|. .++... ....+                       ++ +..+.+..     .+++-++|+|+++...  ....+..
T Consensus        85 pD~-~~i~~~~~~i~i-----------------------~~-iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk  139 (394)
T PRK07940         85 PDV-RVVAPEGLSIGV-----------------------DE-VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLK  139 (394)
T ss_pred             CCE-EEeccccccCCH-----------------------HH-HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHH
Confidence            111 111110 01111                       11 11222222     2455688889998642  2233333


Q ss_pred             cCCCCCCCeEEEEeecchh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          277 SLSDCQNGSKIVFTTRSEE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       277 ~l~~~~~gs~iivTTr~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                      .+.....+..+|++|.+.. +.           +.+++.++..+.+....+.        ..+.+..++..++|.|....
T Consensus       140 ~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~--------~~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        140 AVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV--------DPETARRAARASQGHIGRAR  211 (394)
T ss_pred             HhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC--------CHHHHHHHHHHcCCCHHHHH
Confidence            3333344566666666543 22           7888999988888743321        14567889999999997554


Q ss_pred             HH
Q 038405          345 TI  346 (863)
Q Consensus       345 ~~  346 (863)
                      .+
T Consensus       212 ~l  213 (394)
T PRK07940        212 RL  213 (394)
T ss_pred             HH
Confidence            43

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=5.1e-05  Score=84.09  Aligned_cols=168  Identities=15%  Similarity=0.127  Sum_probs=100.6

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccc------------------cCCCCEEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDV------------------NHCFDLVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~------------------~~~F~~~~wv~~  213 (863)
                      .++||.+..++.+.+.+..+... .+.++|+.|+||||+|+.++....-.                  .+.+..++.+..
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eida   92 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDA   92 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEec
Confidence            56899999999999988777665 78999999999999999887643000                  001112233333


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEee
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTT  291 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTT  291 (863)
                      +....+.++- +|.+.....                  -..+++-++|+|++...  .....+...+....+.+++|++|
T Consensus        93 as~~~vddIR-~Iie~~~~~------------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlat  153 (491)
T PRK14964         93 ASNTSVDDIK-VILENSCYL------------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILAT  153 (491)
T ss_pred             ccCCCHHHHH-HHHHHHHhc------------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            3222222211 121111000                  01245668999999754  23444444444444566766655


Q ss_pred             cc-hhhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHH
Q 038405          292 RS-EEVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLA  342 (863)
Q Consensus       292 r~-~~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  342 (863)
                      .. ..+.           +.+++.++..+.+...+.......   .++..+.|++.++|.+-.
T Consensus       154 te~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i---~~eAL~lIa~~s~GslR~  213 (491)
T PRK14964        154 TEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEH---DEESLKLIAENSSGSMRN  213 (491)
T ss_pred             CChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHH
Confidence            43 3332           677888888888887765433211   256678899999887743

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.13  E-value=2.1e-06  Score=84.75  Aligned_cols=200  Identities=21%  Similarity=0.197  Sum_probs=111.5

Q ss_pred             hcCCCccEEeccCCcCcccc---chhhhcccccceeeccCCCcc----ccchhhhcccCccEEecCCCCCccccchhhhc
Q 038405          542 ESMGALKVLDLSYNLDLTQL---PAEMGALINLRCLNLSNTSIE----ELPSEIMYLKNLKILLLDGMRHFHLIPARVFS  614 (863)
Q Consensus       542 ~~l~~L~~L~Ls~~~~i~~l---p~~i~~L~~L~~L~L~~~~i~----~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~  614 (863)
                      ...++++.|||.+| .+..-   -..+.+|++|++|+|+.|.+.    .+|   ..+.+|+.|-|.++..-..-..+.+.
T Consensus        68 ~~~~~v~elDL~~N-~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~nl~~lVLNgT~L~w~~~~s~l~  143 (418)
T KOG2982|consen   68 SSVTDVKELDLTGN-LISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKNLRVLVLNGTGLSWTQSTSSLD  143 (418)
T ss_pred             HHhhhhhhhhcccc-hhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccceEEEEEcCCCCChhhhhhhhh
Confidence            34566777777777 44432   223346777777777777544    333   23557777777766522222223355


Q ss_pred             CCCCCceeeccCcchhhhccCCCCcc---ccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcc
Q 038405          615 SLLSLKVFSLFSTELIELHRMPPNQT---TILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSH  691 (863)
Q Consensus       615 ~L~~L~~L~l~~~~~~~~~~~~~~~~---~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~  691 (863)
                      .++.++.|+++.|+...+........   +.+..|....+          ...............+++..+-+..|....
T Consensus       144 ~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c----------~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~  213 (418)
T KOG2982|consen  144 DLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPC----------LEQLWLNKNKLSRIFPNVNSVFVCEGPLKT  213 (418)
T ss_pred             cchhhhhhhhccchhhhhccccccccccchhhhhhhcCCc----------HHHHHHHHHhHHhhcccchheeeecCcccc
Confidence            66777777777665433322111100   11111111110          000000111111234677778787775443


Q ss_pred             cc---cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc-------ccccCCCcceEeec
Q 038405          692 SI---DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT-------WIREAPNLQFLSLV  756 (863)
Q Consensus       692 ~~---~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~-------~l~~l~~L~~L~L~  756 (863)
                      ..   ...+++.+.-|.++.+++.++.... ....|+.|..|.+.+++.+..+.       .++.|++++.|+=+
T Consensus       214 ~s~ek~se~~p~~~~LnL~~~~idswasvD-~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  214 ESSEKGSEPFPSLSCLNLGANNIDSWASVD-ALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             hhhcccCCCCCcchhhhhcccccccHHHHH-HHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            32   2667778888899988877663221 34578999999999998876652       25788999988655

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.11  E-value=5.6e-05  Score=83.28  Aligned_cols=189  Identities=10%  Similarity=0.043  Sum_probs=103.6

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE-eCCCCCHHHHHHHHHHHc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA-VSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~l  230 (863)
                      .+++|.+..++.+.+++.++.+. .+.++|+.|+||||+|+.+++... -...++...|.. +..++..-...+.+....
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~-c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~   94 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDADYLQEVTEPCGECESCRDFDAGT   94 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc-CCCCcCcccccccCCCCCCCCHHHHHHhcCC
Confidence            56889999999999999887665 488999999999999999887662 111111111110 001111111111111110


Q ss_pred             CCCcccccc---cChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecc-hhhh--
Q 038405          231 DISDYIWNM---KGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRS-EEVC--  297 (863)
Q Consensus       231 ~~~~~~~~~---~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~-~~v~--  297 (863)
                      ......++.   ...++ +..+.+.+     .+++-++|+|++....  .+..+...+......+.+|++|.. ..+.  
T Consensus        95 ~~n~~~~~~~~~~~id~-Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~t  173 (397)
T PRK14955         95 SLNISEFDAASNNSVDD-IRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPAT  173 (397)
T ss_pred             CCCeEeecccccCCHHH-HHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHH
Confidence            000000000   11122 22233333     2456688999987543  455555555444456676665533 3332  


Q ss_pred             ---------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHH
Q 038405          298 ---------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITI  346 (863)
Q Consensus       298 ---------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  346 (863)
                               +.+++.++..+.+...+......   -..+.+..|++.++|.+- |+..+
T Consensus       174 l~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~---i~~~al~~l~~~s~g~lr~a~~~L  229 (397)
T PRK14955        174 IASRCQRFNFKRIPLEEIQQQLQGICEAEGIS---VDADALQLIGRKAQGSMRDAQSIL  229 (397)
T ss_pred             HHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence                     67788888887777665322211   126778899999999774 44433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.11  E-value=4.1e-05  Score=86.29  Aligned_cols=168  Identities=13%  Similarity=0.143  Sum_probs=97.5

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccC-------------------CCCEEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNH-------------------CFDLVIFVA  212 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------~F~~~~wv~  212 (863)
                      +++||-+..++.+.+++..+.+. .+.++|+.|+||||+|+.+++... -..                   .|.-++.+.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~-c~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN-CEKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc-CCCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            56899999999999999876654 578999999999999999887651 111                   111122222


Q ss_pred             eCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEe
Q 038405          213 VSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFT  290 (863)
Q Consensus       213 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivT  290 (863)
                      .+....++.+ +++++.+...                  -..++.-++|+|+|+..  .....+...+......+++|++
T Consensus        95 aas~~~v~~i-R~l~~~~~~~------------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIla  155 (509)
T PRK14958         95 AASRTKVEDT-RELLDNIPYA------------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILA  155 (509)
T ss_pred             ccccCCHHHH-HHHHHHHhhc------------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEE
Confidence            2222222221 1122211100                  11356678999999864  3344444444333445676666


Q ss_pred             ecch-hhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          291 TRSE-EVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       291 Tr~~-~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                      |.+. .+.           +++++.++....+...+.......   ..+....|++.++|.+--+
T Consensus       156 ttd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~---~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        156 TTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEF---ENAALDLLARAANGSVRDA  217 (509)
T ss_pred             ECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCcHHHH
Confidence            5443 222           777888777666655543322111   2456678888888877433

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.10  E-value=7.5e-05  Score=81.77  Aligned_cols=171  Identities=11%  Similarity=0.150  Sum_probs=99.0

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccc-c------------------CCCCEEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDV-N------------------HCFDLVIFVA  212 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-~------------------~~F~~~~wv~  212 (863)
                      .+++|.++.++.+.+++..+.. ..+.++|++|+||||+|+.++...... .                  .+++. +++.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-~~~~   92 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-IEID   92 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEee
Confidence            5689999999999999977654 467899999999999999888764110 0                  12222 2222


Q ss_pred             eCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEe
Q 038405          213 VSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFT  290 (863)
Q Consensus       213 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivT  290 (863)
                      .+....... .+++.+.+...                  -..+++-++|+|+++..  .....+...+......+.+|++
T Consensus        93 ~~~~~~~~~-~~~l~~~~~~~------------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~  153 (355)
T TIGR02397        93 AASNNGVDD-IREILDNVKYA------------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILA  153 (355)
T ss_pred             ccccCCHHH-HHHHHHHHhcC------------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEE
Confidence            211111111 11222211110                  01245568899998654  2344444444333446677777


Q ss_pred             ecchh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          291 TRSEE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       291 Tr~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      |.+.. +.           +.++++++..+.+...+.......   ..+.+..+++.++|.|..+...
T Consensus       154 ~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i---~~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       154 TTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI---EDEALELIARAADGSLRDALSL  218 (355)
T ss_pred             eCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCChHHHHHH
Confidence            65543 11           666778887777776553322111   1467788888888888655443

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.

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

Probab=98.09  E-value=2.2e-07  Score=91.63  Aligned_cols=81  Identities=25%  Similarity=0.197  Sum_probs=46.8

Q ss_pred             CccEEeccCCcCcc--ccchhhhcccccceeeccCCCcc-ccchhhhcccCccEEecCCCCCccccch-hhhcCCCCCce
Q 038405          546 ALKVLDLSYNLDLT--QLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKV  621 (863)
Q Consensus       546 ~L~~L~Ls~~~~i~--~lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~  621 (863)
                      .|++||||.. .++  .+-..+..+.+|+.|.|.++.+. .+-..|.+=.+|+.|+++.|..+..... -++.+++.|..
T Consensus       186 Rlq~lDLS~s-~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  186 RLQHLDLSNS-VITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhHHhhcchh-heeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            5777777776 443  33334556667777777776554 3344455666677777776664443321 12455666666


Q ss_pred             eeccCc
Q 038405          622 FSLFST  627 (863)
Q Consensus       622 L~l~~~  627 (863)
                      |+++.|
T Consensus       265 LNlsWc  270 (419)
T KOG2120|consen  265 LNLSWC  270 (419)
T ss_pred             cCchHh
Confidence            666544

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

Probab=98.09  E-value=1.5e-07  Score=92.63  Aligned_cols=179  Identities=21%  Similarity=0.177  Sum_probs=111.6

Q ss_pred             cccceeeccCCCcc--ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhh
Q 038405          569 INLRCLNLSNTSIE--ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDEL  646 (863)
Q Consensus       569 ~~L~~L~L~~~~i~--~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L  646 (863)
                      ..||+|||+.+.|+  .+---+..+.+|+.|.+.++..-..+... +.+-.+|+.|+++.|+-.        ....+   
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~-iAkN~~L~~lnlsm~sG~--------t~n~~---  252 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNT-IAKNSNLVRLNLSMCSGF--------TENAL---  252 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHH-Hhccccceeecccccccc--------chhHH---
Confidence            35899999998776  45555778899999999988733334333 677788999998875310        00011   


Q ss_pred             hhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc---c-cccCCcceeEeccCc--ccccCCCCCC
Q 038405          647 ECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID---L-RNMMHLETLNIVECS--LERVDPTFNG  720 (863)
Q Consensus       647 ~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~---l-~~~~~L~~L~l~~~~--l~~~~~~~~~  720 (863)
                                             ......|+.|..|+++||......-   . .--++|..|+|+||.  +..-... .-
T Consensus       253 -----------------------~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~-tL  308 (419)
T KOG2120|consen  253 -----------------------QLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLS-TL  308 (419)
T ss_pred             -----------------------HHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHH-HH
Confidence                                   1112235567777888876644321   1 112578888888885  1111000 01


Q ss_pred             CCCCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          721 WTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       721 ~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      ...+++|..|+|+.|..++.-  ..+-+++.|++|.++.|+.+.  |.      .....+..|+|.+|++.+|
T Consensus       309 ~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~--p~------~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  309 VRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDII--PE------TLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             HHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCC--hH------HeeeeccCcceEEEEeccc
Confidence            225788888888888776652  345678888888888888642  21      1234566777777777765

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.08  E-value=3e-05  Score=78.80  Aligned_cols=158  Identities=15%  Similarity=0.126  Sum_probs=87.5

Q ss_pred             ccc-ch-hhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          154 KTV-GA-DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       154 ~~v-Gr-~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .|+ |. ...+..+..+......+.+.|+|+.|+|||+|++.+++...   ..-..+.|+.+.....             
T Consensus        23 ~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~-------------   86 (235)
T PRK08084         23 SFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAW-------------   86 (235)
T ss_pred             ccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhh-------------
Confidence            344 63 33444455554455567899999999999999999998762   2234566776542100             


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEcccccc---cccccc-cccCCC-CCCC-eEEEEeecchhhh--------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER---LDLSKT-GVSLSD-CQNG-SKIVFTTRSEEVC--------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~~-~~~l~~-~~~g-s~iivTTr~~~v~--------  297 (863)
                               ..    ..+.+.+.. --+|++||+...   ..|+.. ...+.. ...| .++|+||+...-.        
T Consensus        87 ---------~~----~~~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L  152 (235)
T PRK08084         87 ---------FV----PEVLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDL  152 (235)
T ss_pred             ---------hh----HHHHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHH
Confidence                     00    011112211 237899999753   234322 122211 1123 3799999865332        


Q ss_pred             -----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 -----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 -----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                                 +++++.++-.+.+.+++......   --+++..-|++.+.|..-++.
T Consensus       153 ~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~---l~~~v~~~L~~~~~~d~r~l~  207 (235)
T PRK08084        153 ASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFE---LPEDVGRFLLKRLDREMRTLF  207 (235)
T ss_pred             HHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHhhcCCHHHHH
Confidence                       66677777777776655332211   125666777777776554433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=6.2e-05  Score=85.90  Aligned_cols=183  Identities=14%  Similarity=0.129  Sum_probs=100.5

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCC--CEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCF--DLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +++||-+..++.|.+++..+.+ ..+.++|..|+||||+|+.+++... -....  ...-.    ..++.-...+.|...
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~Ln-C~~~~~~~~~~~----~pCg~C~~C~~i~~g   90 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLN-CQGPDGQGGITA----TPCGVCQACRDIDSG   90 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCcccccCCCC----CCCCccHHHHHHHcC
Confidence            5689999999999999987665 5678999999999999999876541 00000  00000    011111122222110


Q ss_pred             cCCCcccc---cccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc-hhhh-
Q 038405          230 LDISDYIW---NMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS-EEVC-  297 (863)
Q Consensus       230 l~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~-~~v~-  297 (863)
                      -.......   .....++. ..+.+..     .++.-++|+|+|+..  ..+..+...+.......++|++|.+ ..+. 
T Consensus        91 ~h~D~~eldaas~~~Vd~i-Reli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~  169 (618)
T PRK14951         91 RFVDYTELDAASNRGVDEV-QQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPV  169 (618)
T ss_pred             CCCceeecCcccccCHHHH-HHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhH
Confidence            00000000   00111111 1122221     245568999999864  3344444444333445566655544 2222 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                                +++++.++..+.+...+...+...   ..+....|++.++|.+--+.
T Consensus       170 TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i---e~~AL~~La~~s~GslR~al  223 (618)
T PRK14951        170 TVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA---EPQALRLLARAARGSMRDAL  223 (618)
T ss_pred             HHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHH
Confidence                      888999998888887764433222   25677889999999774433

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.06  E-value=3.8e-05  Score=87.77  Aligned_cols=180  Identities=15%  Similarity=0.112  Sum_probs=100.6

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .++||-+..++.|.+.+..+.+. .+.++|..|+||||+|+.+++... -...+.       ...+..-...+.|...-.
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~-c~~~~~-------~~pCg~C~~C~~i~~g~~   87 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLN-CETGIT-------ATPCGECDNCREIEQGRF   87 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhh-hccCCC-------CCCCCCCHHHHHHHcCCC
Confidence            56899999999999999876654 468999999999999999987762 100000       011111122222211000


Q ss_pred             CCcccc--c-ccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc-hhhh---
Q 038405          232 ISDYIW--N-MKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS-EEVC---  297 (863)
Q Consensus       232 ~~~~~~--~-~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~-~~v~---  297 (863)
                      ......  . ....++ ...+.+.     ..+++-++|+|+++..  .....+...+-......++|++|.+ ..+.   
T Consensus        88 ~D~ieidaas~~~Vdd-iR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI  166 (647)
T PRK07994         88 VDLIEIDAASRTKVED-TRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  166 (647)
T ss_pred             CCceeecccccCCHHH-HHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHH
Confidence            000000  0 011111 1222222     2456779999999854  2344443333333334555544444 3332   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                              +++++.++..+.+...+.....   ....+....|++.++|.+--+.
T Consensus       167 ~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i---~~e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        167 LSRCLQFHLKALDVEQIRQQLEHILQAEQI---PFEPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             HhhheEeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence                    8899999999888876533221   1225667889999999885433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.05  E-value=9.6e-05  Score=83.95  Aligned_cols=174  Identities=16%  Similarity=0.169  Sum_probs=99.8

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhcccccc------------------CCCCEEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVN------------------HCFDLVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~  213 (863)
                      .++||-+..++.+.+++..+... .+.++|+.|+||||+|+.++....-..                  +.|...+++..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~   95 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDA   95 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeec
Confidence            56889999999999999876654 568999999999999999887651000                  01111122221


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEee
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTT  291 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTT  291 (863)
                      +....+..+ +++++.+...                  -..+++-++|+|+++...  ....+...+......+.+|++|
T Consensus        96 ~~~~~vd~i-r~l~~~~~~~------------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t  156 (527)
T PRK14969         96 ASNTQVDAM-RELLDNAQYA------------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT  156 (527)
T ss_pred             cccCCHHHH-HHHHHHHhhC------------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEe
Confidence            111111111 1111111000                  013566799999998643  2334444443333456666655


Q ss_pred             cchh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHHHH
Q 038405          292 RSEE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITIAR  348 (863)
Q Consensus       292 r~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~  348 (863)
                      .+.. +.           +++++.++..+.+...+......   -..+....|++.++|.+- |+..+-.
T Consensus       157 ~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~---~~~~al~~la~~s~Gslr~al~lldq  223 (527)
T PRK14969        157 TDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP---FDATALQLLARAAAGSMRDALSLLDQ  223 (527)
T ss_pred             CChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4432 21           77888888887777665332211   125667888999999774 4444333

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.01  E-value=0.00011  Score=80.67  Aligned_cols=167  Identities=14%  Similarity=0.168  Sum_probs=94.0

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccc-----cCCCCEEE-EEEeCCCCCHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDV-----NHCFDLVI-FVAVSKEGNLEKIQEV  225 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-----~~~F~~~~-wv~~~~~~~~~~~~~~  225 (863)
                      .+++|.+..++.+.+.+..+.. +.+.++|+.|+||||+|+.+.+.....     ...|...+ -+......+...+ ++
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i-~~   95 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDI-RN   95 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHH-HH
Confidence            5688999999999999987655 478899999999999999998765210     01121111 1111111111111 11


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecch-hhh-----
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSE-EVC-----  297 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~-~v~-----  297 (863)
                      +.+.+...                  -..+++-++|+|+++...  .+..+...+......+.+|++|... .+.     
T Consensus        96 l~~~~~~~------------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~s  157 (367)
T PRK14970         96 LIDQVRIP------------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILS  157 (367)
T ss_pred             HHHHHhhc------------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHh
Confidence            22211100                  012455689999987532  2444433333323345566555332 221     


Q ss_pred             ------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          298 ------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 ------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                            ..++++++....+...+.......   ..+....+++.++|.+-
T Consensus       158 r~~~v~~~~~~~~~l~~~l~~~~~~~g~~i---~~~al~~l~~~~~gdlr  204 (367)
T PRK14970        158 RCQIFDFKRITIKDIKEHLAGIAVKEGIKF---EDDALHIIAQKADGALR  204 (367)
T ss_pred             cceeEecCCccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhCCCCHH
Confidence                  666777887777776654332211   15677888888888654

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.01  E-value=6.3e-05  Score=80.59  Aligned_cols=190  Identities=9%  Similarity=0.018  Sum_probs=106.2

Q ss_pred             ccCCccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc-CCCCEEEEEEeCCCCCHHHHHHHH
Q 038405          149 GMATEKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN-HCFDLVIFVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       149 ~~~~~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i  226 (863)
                      |+....++|-++..+.+...+..+.. ..+.|+|..|+||||+|..+++...... ..+...   ....++......+.|
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i   95 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQI   95 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHH
Confidence            34456789999999999999987664 4589999999999999999888762100 001111   011111111223333


Q ss_pred             HHH-------cCCCcccc-----cccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEE
Q 038405          227 RKK-------LDISDYIW-----NMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKI  287 (863)
Q Consensus       227 ~~~-------l~~~~~~~-----~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~i  287 (863)
                      ...       +..+....     .....++ +..+.+++     .+++-++|+|+++...  ....+...+.....+..+
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~f  174 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALF  174 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceE
Confidence            221       00000000     0011222 23444444     3567799999998642  233333333222234444


Q ss_pred             EEeecch-hhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHH
Q 038405          288 VFTTRSE-EVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA  347 (863)
Q Consensus       288 ivTTr~~-~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  347 (863)
                      |++|... .+.           +.+++.++..+.+........     -..+....+++.++|.|..+..+.
T Consensus       175 iLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~-----~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        175 ILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG-----SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC-----CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4444333 222           889999999999987432111     114557889999999998665443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.01  E-value=0.00014  Score=71.48  Aligned_cols=149  Identities=17%  Similarity=0.151  Sum_probs=85.5

Q ss_pred             HHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc-------------------CCCCEEEEEEeC-CCCCHHHH
Q 038405          164 EVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN-------------------HCFDLVIFVAVS-KEGNLEKI  222 (863)
Q Consensus       164 ~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~F~~~~wv~~~-~~~~~~~~  222 (863)
                      .+.+.+..+.. ..+.++|+.|+||||+|+.+.+......                   .+.|. .++... .....+.+
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQV   81 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHHH
Confidence            45566666555 5789999999999999999887752110                   11122 122111 11111111


Q ss_pred             HHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchh-hh--
Q 038405          223 QEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEE-VC--  297 (863)
Q Consensus       223 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~-v~--  297 (863)
                       +++.+.+...                  -..+.+-++|+||++...  ....+...+......+.+|++|++.. +.  
T Consensus        82 -~~i~~~~~~~------------------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~  142 (188)
T TIGR00678        82 -RELVEFLSRT------------------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPT  142 (188)
T ss_pred             -HHHHHHHccC------------------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHH
Confidence             1122221110                  012456689999987542  34445444444445666777776542 21  


Q ss_pred             ---------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          298 ---------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 ---------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                               +.+++.++..+.+... +   .     ..+.+..|++.++|.|.
T Consensus       143 i~sr~~~~~~~~~~~~~~~~~l~~~-g---i-----~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       143 IRSRCQVLPFPPLSEEALLQWLIRQ-G---I-----SEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHhhcEEeeCCCCCHHHHHHHHHHc-C---C-----CHHHHHHHHHHcCCCcc
Confidence                     7788888888877765 1   1     14678899999999885

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.

>TIGR00767 rho transcription termination factor Rho

Probab=98.01  E-value=1.4e-05  Score=84.79  Aligned_cols=94  Identities=18%  Similarity=0.162  Sum_probs=63.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC--CCHHHHHHHHHHHcCCCcccccccChhhHHH--
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE--GNLEKIQEVIRKKLDISDYIWNMKGEYDRAV--  247 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~--  247 (863)
                      ..-..++|+|.+|+|||||++.+++...  ..+|+..+|+.+.+.  .++.++++.+...+-..............+.  
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~--~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT--RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc--ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            3456789999999999999999999873  347999999999866  7899999999543322211000000011111  


Q ss_pred             -HHHHH--hccCcEEEEEccccc
Q 038405          248 -EILIS--LRRKKFVLLLDDVWE  267 (863)
Q Consensus       248 -~l~~~--l~~k~~LlVlDdv~~  267 (863)
                       ...++  -.+++++|++|++..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhH
Confidence             11122  257999999999965

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

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

Probab=97.99  E-value=4.3e-07  Score=99.76  Aligned_cols=79  Identities=24%  Similarity=0.311  Sum_probs=46.5

Q ss_pred             CccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeecc
Q 038405          546 ALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLF  625 (863)
Q Consensus       546 ~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~  625 (863)
                      .|.+.+.++| .+..+-.++.-+++|++|||++|++...- .+..|++|+||||++|. +..+|.--...+ +|+.|.+.
T Consensus       165 ~L~~a~fsyN-~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~-L~~vp~l~~~gc-~L~~L~lr  240 (1096)
T KOG1859|consen  165 KLATASFSYN-RLVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNC-LRHVPQLSMVGC-KLQLLNLR  240 (1096)
T ss_pred             hHhhhhcchh-hHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccch-hccccccchhhh-hheeeeec
Confidence            3555556666 55555566666667777777777666654 56666777777777665 555554111122 26666666


Q ss_pred             Ccc
Q 038405          626 STE  628 (863)
Q Consensus       626 ~~~  628 (863)
                      +|.
T Consensus       241 nN~  243 (1096)
T KOG1859|consen  241 NNA  243 (1096)
T ss_pred             ccH
Confidence            553

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

Probab=97.98  E-value=2.3e-06  Score=95.28  Aligned_cols=126  Identities=24%  Similarity=0.322  Sum_probs=99.5

Q ss_pred             ccccceEEEeccCCccccCC-CC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceee
Q 038405          498 SWREDFRLSLWGSSIEYLPE-TP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLN  575 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~-~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~  575 (863)
                      ....+..+.+.+|.++.+.. .. +++|++|++++|.+..+..  +..++.|+.|++++| .+..++. +..+..|+.++
T Consensus        93 ~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~--l~~l~~L~~L~l~~N-~i~~~~~-~~~l~~L~~l~  168 (414)
T KOG0531|consen   93 KLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGN-LISDISG-LESLKSLKLLD  168 (414)
T ss_pred             cccceeeeeccccchhhcccchhhhhcchheeccccccccccc--hhhccchhhheeccC-cchhccC-Cccchhhhccc
Confidence            34578889999999999888 55 9999999999999988876  678889999999999 7877764 66699999999


Q ss_pred             ccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          576 LSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       576 L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      +++|.+..++.. ...+.+|+.+++.+|. +..+. + +..+..+..+++..|.+.
T Consensus       169 l~~n~i~~ie~~~~~~~~~l~~l~l~~n~-i~~i~-~-~~~~~~l~~~~l~~n~i~  221 (414)
T KOG0531|consen  169 LSYNRIVDIENDELSELISLEELDLGGNS-IREIE-G-LDLLKKLVLLSLLDNKIS  221 (414)
T ss_pred             CCcchhhhhhhhhhhhccchHHHhccCCc-hhccc-c-hHHHHHHHHhhcccccce
Confidence            999999988765 6889999999999987 33332 1 334444444556555544

>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=97.97  E-value=8.2e-06  Score=57.85  Aligned_cols=34  Identities=44%  Similarity=0.578  Sum_probs=16.3

Q ss_pred             ccceeeccCCCccccchhhhcccCccEEecCCCC
Q 038405          570 NLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       570 ~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~  603 (863)
                      +|++|++++|+|+.+|..+++|++|++|++++|.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCC
Confidence            4455555555555555445555555555555554

...

>PRK09087 hypothetical protein; Validated

Probab=97.95  E-value=9.1e-05  Score=74.48  Aligned_cols=132  Identities=15%  Similarity=0.086  Sum_probs=79.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      ..+.+.|||..|+|||+|++.++...   .     ..|++..      .+...+..                       .
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~---~-----~~~i~~~------~~~~~~~~-----------------------~   85 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS---D-----ALLIHPN------EIGSDAAN-----------------------A   85 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc---C-----CEEecHH------HcchHHHH-----------------------h
Confidence            35679999999999999999888664   1     1233321      11111111                       1


Q ss_pred             hccCcEEEEEccccccc-ccccccccCC-CCCCCeEEEEeecchhhh-------------------cccCCHHHHHHHHh
Q 038405          253 LRRKKFVLLLDDVWERL-DLSKTGVSLS-DCQNGSKIVFTTRSEEVC-------------------VECLSPEAALDLFR  311 (863)
Q Consensus       253 l~~k~~LlVlDdv~~~~-~~~~~~~~l~-~~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~Lf~  311 (863)
                      +.+  -+|++||+.... +-+.+...+. -...|..||+|++...-.                   +++++.++-.+++.
T Consensus        86 ~~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         86 AAE--GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             hhc--CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence            111  278889996431 1111222221 123466799988743221                   78899999999999


Q ss_pred             HhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          312 YKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      +++.......   -+++..-|++.+.|..-++..+
T Consensus       164 ~~~~~~~~~l---~~ev~~~La~~~~r~~~~l~~~  195 (226)
T PRK09087        164 KLFADRQLYV---DPHVVYYLVSRMERSLFAAQTI  195 (226)
T ss_pred             HHHHHcCCCC---CHHHHHHHHHHhhhhHHHHHHH
Confidence            8875433222   2678888888888877666543

>PLN03150 hypothetical protein; Provisional

Probab=97.95  E-value=1.4e-05  Score=93.41  Aligned_cols=84  Identities=25%  Similarity=0.334  Sum_probs=75.1

Q ss_pred             CccEEeccCCcCccccchhhhcccccceeeccCCCcc-ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeec
Q 038405          546 ALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSL  624 (863)
Q Consensus       546 ~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l  624 (863)
                      .++.|+|++|.....+|..+++|.+|++|+|++|.+. .+|..++++++|+.|+|++|.....+|.. +++|++|++|++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~L  497 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNL  497 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEEC
Confidence            4788999999555589999999999999999999987 88999999999999999999866678877 899999999999


Q ss_pred             cCcchh
Q 038405          625 FSTELI  630 (863)
Q Consensus       625 ~~~~~~  630 (863)
                      ++|.+.
T Consensus       498 s~N~l~  503 (623)
T PLN03150        498 NGNSLS  503 (623)
T ss_pred             cCCccc
Confidence            988654

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=0.00014  Score=82.42  Aligned_cols=187  Identities=11%  Similarity=0.105  Sum_probs=104.4

Q ss_pred             ccccchhhHHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|-+..++.|.+.+..+. ...+.++|+.|+||||+|+.+++... -....+.       ..++.-...+.|.....
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~-C~~~~~~-------~pCg~C~sC~~i~~g~h   87 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN-CETAPTG-------EPCNTCEQCRKVTQGMH   87 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc-ccCCCCC-------CCCcccHHHHHHhcCCC
Confidence            567899998888999887765 46788899999999999999887762 1110000       01111111111111100


Q ss_pred             CCccccc---ccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecch-hhh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSE-EVC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~-~v~---  297 (863)
                      .......   ....++ +..+.+.     ..+++-++|+|+++..  .....+...+........+|++|.+. .+.   
T Consensus        88 pDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI  166 (624)
T PRK14959         88 VDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTI  166 (624)
T ss_pred             CceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHH
Confidence            0000000   001111 1122222     2356679999999764  23344444443323455666655543 322   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHHHHHh
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIARAMS  351 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l~  351 (863)
                              +++++.++..+.+...+.......   ..+.++.|++.++|.+ .|+..+...+.
T Consensus       167 ~SRcq~i~F~pLs~~eL~~~L~~il~~egi~i---d~eal~lIA~~s~GdlR~Al~lLeqll~  226 (624)
T PRK14959        167 VSRCQHFTFTRLSEAGLEAHLTKVLGREGVDY---DPAAVRLIARRAAGSVRDSMSLLGQVLA  226 (624)
T ss_pred             HhhhhccccCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence                    778888888888877654332111   2567888999999864 67777665543

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

Probab=97.94  E-value=2.9e-07  Score=101.11  Aligned_cols=130  Identities=28%  Similarity=0.247  Sum_probs=103.0

Q ss_pred             CccccccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhccccc
Q 038405          495 SADSWREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINL  571 (863)
Q Consensus       495 ~~~~~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L  571 (863)
                      +...|.++...++.+|.+..+....  ++.|+.|+|+.|++....  ++..+++|+.|||++| .+..+|.- ...+ +|
T Consensus       159 ns~~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc-~L  234 (1096)
T KOG1859|consen  159 NSPVWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYN-CLRHVPQLSMVGC-KL  234 (1096)
T ss_pred             cchhhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccc-hhccccccchhhh-hh
Confidence            3445778888888888888777766  899999999999988876  4889999999999999 88888862 2233 49


Q ss_pred             ceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          572 RCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       572 ~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      +.|++++|.+++|- ++.+|.+|+.||+++|-....-.-..++.|..|..|.+.||.+
T Consensus       235 ~~L~lrnN~l~tL~-gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  235 QLLNLRNNALTTLR-GIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             eeeeecccHHHhhh-hHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            99999999999884 6899999999999998533222222267788899999998765

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.93  E-value=0.00017  Score=82.61  Aligned_cols=184  Identities=13%  Similarity=0.098  Sum_probs=101.8

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCC--EEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFD--LVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      .+++|.+..++.+.+++..+... .+.++|+.|+||||+|+.+++... -.....  ...+    +.+..-...+.|...
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~-c~~~~~~~~~~~----~~cg~c~~C~~i~~g   98 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALN-YEGPDGDGGPTI----DLCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhC-cCCccccCCCcc----ccCcccHHHHHHhcC
Confidence            56899999999999999876654 688999999999999999987651 111000  0000    001111111222221


Q ss_pred             cCCCcccc---cccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEee-cchhhh-
Q 038405          230 LDISDYIW---NMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTT-RSEEVC-  297 (863)
Q Consensus       230 l~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTT-r~~~v~-  297 (863)
                      -.......   .....++ +..+.+.+     .+++-++|+|++....  ....+...+.....++++|++| ....+. 
T Consensus        99 ~h~Dv~e~~a~s~~gvd~-IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~  177 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDD-IREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPV  177 (598)
T ss_pred             CCCceEEecccccCCHHH-HHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhH
Confidence            10000000   0111122 11222222     2455689999997543  3444444443334466666555 333332 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                                +..++.++....+...+.......   ..+....|++.++|.+.-+..
T Consensus       178 tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i---~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        178 TVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEV---EDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             HHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence                      677888888888877664332211   246778889999998855443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.93  E-value=2.1e-05  Score=85.86  Aligned_cols=160  Identities=18%  Similarity=0.236  Sum_probs=91.5

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      +++.|+++.++++.+.+..             ...+-+.++|++|+|||++|+.+++..   ...|     +.+..    
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l---~~~~-----~~v~~----  189 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATF-----IRVVG----  189 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC---CCCE-----Eecch----
Confidence            4678999999999887632             123458999999999999999999876   3333     22211    


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEccccccc----------------ccccccccCC--C
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWERL----------------DLSKTGVSLS--D  280 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------------~~~~~~~~l~--~  280 (863)
                      ..+....   .+         ........+.+.. ...+.+|++|+++...                .+..+...+.  .
T Consensus       190 ~~l~~~~---~g---------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       190 SELVRKY---IG---------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             HHHHHHh---hh---------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence            1111110   00         0111122222222 2467899999997531                0111111111  1


Q ss_pred             CCCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          281 CQNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ...+.+||.||......               +...+.++..++|...+.......+.    ....+++.+.|..
T Consensus       258 ~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~----~~~~la~~t~g~s  328 (364)
T TIGR01242       258 PRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDV----DLEAIAKMTEGAS  328 (364)
T ss_pred             CCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccC----CHHHHHHHcCCCC
Confidence            23466788888753321               56678899999998876543322111    2466777777764

Many proteins may score above the trusted cutoff because an internal

>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=97.91  E-value=1.1e-05  Score=57.12  Aligned_cols=41  Identities=46%  Similarity=0.675  Sum_probs=34.8

Q ss_pred             CCccEEeccCCcCccccchhhhcccccceeeccCCCccccch
Q 038405          545 GALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPS  586 (863)
Q Consensus       545 ~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~  586 (863)
                      ++|++|++++| .++.+|..+++|++|++|++++|.|+.+|.
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCC-CCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            47999999999 888999889999999999999999987764

...

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.90  E-value=0.00015  Score=77.86  Aligned_cols=46  Identities=13%  Similarity=0.102  Sum_probs=39.5

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.+...+.+..++..+.. .++.++|.+|+||||+|+.+++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            5689999999999999977654 566669999999999999998875

>PRK05642 DNA replication initiation factor; Validated

Probab=97.90  E-value=0.00016  Score=73.42  Aligned_cols=139  Identities=17%  Similarity=0.239  Sum_probs=80.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ...+.|+|..|+|||.|++.+++...   ..-..++|++..+      +...                    ...+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~~------~~~~--------------------~~~~~~~~   95 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLAE------LLDR--------------------GPELLDNL   95 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHHH------HHhh--------------------hHHHHHhh
Confidence            36789999999999999999988762   1224567776432      1110                    01222333


Q ss_pred             ccCcEEEEEcccccc---ccccc-ccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWER---LDLSK-TGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~---~~~~~-~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      ++-. +||+||+...   ..|+. +...+.. ...|..||+||+...-.                   +++++.++-.+.
T Consensus        96 ~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642         96 EQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             hhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            3322 6788999632   24432 2222221 23466789988854432                   567777777777


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      +..++.......   -+++..-|++.+.|..-++..
T Consensus       175 l~~ka~~~~~~l---~~ev~~~L~~~~~~d~r~l~~  207 (234)
T PRK05642        175 LQLRASRRGLHL---TDEVGHFILTRGTRSMSALFD  207 (234)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHHhcCCCHHHHHH
Confidence            775553322111   156677777777776544443

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.89  E-value=7.5e-05  Score=74.85  Aligned_cols=171  Identities=12%  Similarity=0.106  Sum_probs=107.5

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEE-EEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVI-FVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~-wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|-+..++-+.+.+.....+....+|++|.|||+-|..++... --.+-|.+++ =.++|......-+-..+     
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSderGisvvr~Ki-----  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDERGISVVREKI-----  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccccccccchhhhh-----
Confidence            5678999999999999988788999999999999999998888765 2234554433 24444443222100000     


Q ss_pred             CCcccccccChhhHHHHHHHHh--ccCc-EEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh---------
Q 038405          232 ISDYIWNMKGEYDRAVEILISL--RRKK-FVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC---------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l--~~k~-~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~---------  297 (863)
                              .+............  .-++ -.+|||+++..  +.|..+..........++.|+.|......         
T Consensus       110 --------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~  181 (346)
T KOG0989|consen  110 --------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQ  181 (346)
T ss_pred             --------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHH
Confidence                    01111110000000  0123 46789999864  56877766665555666655544443332         


Q ss_pred             ---cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                         .++|..++...-+...+..++...+   .+..+.|++.++|.-
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~d---~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDID---DDALKLIAKISDGDL  224 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCcH
Confidence               7888999998888888765543332   567889999998854

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=0.00022  Score=81.82  Aligned_cols=190  Identities=9%  Similarity=0.063  Sum_probs=100.5

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE-eCCCCCHHHHHHHHHHHc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA-VSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~l  230 (863)
                      .++||-+..+..+.+++..+.+. .+.++|+.|+||||+|+.+++... -...++...|.. +...++.-...+.+...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~-c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC-CCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            56899999999999999876654 488999999999999998887651 111111001110 001111111111111110


Q ss_pred             CCCccccc---ccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeec-chhhh--
Q 038405          231 DISDYIWN---MKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTR-SEEVC--  297 (863)
Q Consensus       231 ~~~~~~~~---~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr-~~~v~--  297 (863)
                      ......++   ....++.. .+.+.+     .+++-++|+|+++...  ....+...+......+.+|++|. ...+.  
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir-~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~T  173 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIR-QLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPAT  173 (620)
T ss_pred             CCCeEEecccccCCHHHHH-HHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH
Confidence            00000000   01112222 222222     3456688999987643  34444444433334556555553 33332  


Q ss_pred             ---------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHH
Q 038405          298 ---------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIA  347 (863)
Q Consensus       298 ---------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  347 (863)
                               +.+++.++....+...+.......   ..+.+..|++.++|.. .|+..+-
T Consensus       174 I~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I---~~eal~~La~~s~Gdlr~al~eLe  230 (620)
T PRK14954        174 IASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI---DADALQLIARKAQGSMRDAQSILD  230 (620)
T ss_pred             HHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhCCCHHHHHHHHH
Confidence                     677888888777776553222111   2567888999999955 3444433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=0.00029  Score=81.60  Aligned_cols=183  Identities=14%  Similarity=0.088  Sum_probs=101.9

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.+..++.+..++..+.+ ..+.++|..|+||||+|+.+++... ......      ....++.-...+.|.....
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~-c~~~~~------~~~~c~~c~~c~~i~~~~~   88 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN-CTTNDP------KGRPCGTCEMCRAIAEGSA   88 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC------CCCCCccCHHHHHHhcCCC
Confidence            5689999999999999877654 4568999999999999999987651 100000      0011111222333322211


Q ss_pred             CCcccc---cccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecch-hhh---
Q 038405          232 ISDYIW---NMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSE-EVC---  297 (863)
Q Consensus       232 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~-~v~---  297 (863)
                      ......   .....++ ...+.+.+     .+++-++|+|+++..  .....+...+......+.+|++|.+. .+.   
T Consensus        89 ~d~~~i~~~~~~~vd~-ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI  167 (585)
T PRK14950         89 VDVIEMDAASHTSVDD-AREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATI  167 (585)
T ss_pred             CeEEEEeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHH
Confidence            110000   0011111 12222222     245678999998754  33444444443333456666666433 222   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                              +..++.++....+...+.......   ..+.+..|++.++|.+..+...
T Consensus       168 ~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i---~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        168 LSRCQRFDFHRHSVADMAAHLRKIAAAEGINL---EPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             HhccceeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence                    666788887777776654332111   2567889999999988654443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.85  E-value=0.00031  Score=80.04  Aligned_cols=187  Identities=12%  Similarity=0.084  Sum_probs=101.2

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.+..++.|.+++..+.+. .+.++|+.|+||||+|+.+++...- ....+.       .+++.-...+.|...-+
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~~-------~pCg~C~~C~~i~~~~~   84 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC-AQGPTA-------TPCGVCESCVALAPNGP   84 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc-ccCCCC-------CcccccHHHHHhhcccC
Confidence            56899999999999999887655 4689999999999999998876510 010000       00000011111110000


Q ss_pred             CCccc--cc---ccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEee-cchhhh-
Q 038405          232 ISDYI--WN---MKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTT-RSEEVC-  297 (863)
Q Consensus       232 ~~~~~--~~---~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTT-r~~~v~-  297 (863)
                      ...+.  .+   ....++ ...+.+.     ..+++-++|+|++...  .....+...+........+|++| ....+. 
T Consensus        85 ~~~dvieidaas~~gvd~-iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~  163 (584)
T PRK14952         85 GSIDVVELDAASHGGVDD-TRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLP  163 (584)
T ss_pred             CCceEEEeccccccCHHH-HHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHH
Confidence            00000  00   001111 1122221     1245668899998743  33444444444334455555544 433332 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHHHHHHh
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITIARAMS  351 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~l~  351 (863)
                                +.+++.++..+.+...+.......   ..+....|++.++|.+- |+..+-.++.
T Consensus       164 TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i---~~~al~~Ia~~s~GdlR~aln~Ldql~~  225 (584)
T PRK14952        164 TIRSRTHHYPFRLLPPRTMRALIARICEQEGVVV---DDAVYPLVIRAGGGSPRDTLSVLDQLLA  225 (584)
T ss_pred             HHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence                      778888888877776654332111   24567888899999773 5555544443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.84  E-value=0.00024  Score=84.21  Aligned_cols=178  Identities=11%  Similarity=0.045  Sum_probs=97.2

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .++||.+..++.|..++..+.+. .+.++|..|+||||+|+.+++... -......       ..++.-...+.|...-.
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~-C~~~~~~-------~pCg~C~sC~~~~~g~~   86 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN-CVEGPTS-------TPCGECDSCVALAPGGP   86 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC-cccCCCC-------CCCcccHHHHHHHcCCC
Confidence            46889999999999999876654 578999999999999999887762 1010000       00000000111110000


Q ss_pred             CCcc--cc---cccChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc-hhhh-
Q 038405          232 ISDY--IW---NMKGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS-EEVC-  297 (863)
Q Consensus       232 ~~~~--~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~-~~v~-  297 (863)
                      ...+  .+   .....++. ..+.+.     ..+++-++|||+++..  .....+...+......+.+|++|.+ ..+. 
T Consensus        87 ~~~dv~eidaas~~~Vd~i-R~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~  165 (824)
T PRK07764         87 GSLDVTEIDAASHGGVDDA-RELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIG  165 (824)
T ss_pred             CCCcEEEecccccCCHHHH-HHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhH
Confidence            0000  00   00011111 112221     2356668899999864  3344444444443446666655543 3332 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLA  342 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  342 (863)
                                +..++.++..+.+...+......   -..+....|++.++|.+..
T Consensus       166 TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~---id~eal~lLa~~sgGdlR~  217 (824)
T PRK07764        166 TIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP---VEPGVLPLVIRAGGGSVRD  217 (824)
T ss_pred             HHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHH
Confidence                      67788888887777665332211   1245667889999998743

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.83  E-value=0.00013  Score=78.89  Aligned_cols=108  Identities=15%  Similarity=0.154  Sum_probs=71.5

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      .++++.+..++.+...|...  +.|.++|++|+|||++|+.+++.. .....|+.+.||++++.++.......+.-. +.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~v  250 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GV  250 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCCC-CC
Confidence            45778899999999988653  567889999999999999999887 334578889999999988877665422100 00


Q ss_pred             CcccccccChhhHHHHHHHHh--ccCcEEEEEcccccc
Q 038405          233 SDYIWNMKGEYDRAVEILISL--RRKKFVLLLDDVWER  268 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~  268 (863)
                      .   .... .......+...-  .+++++||+|++...
T Consensus       251 g---y~~~-~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        251 G---FRRK-DGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             C---eEec-CchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0   0000 001111112221  247899999999754

>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=97.82  E-value=0.00019  Score=71.99  Aligned_cols=146  Identities=16%  Similarity=0.148  Sum_probs=79.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ...+.|+|..|+|||.|.+++++...+ ...=..++|++      ..+....+...+...           ....+++.+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~-~~~~~~v~y~~------~~~f~~~~~~~~~~~-----------~~~~~~~~~   95 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQK-QHPGKRVVYLS------AEEFIREFADALRDG-----------EIEEFKDRL   95 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHH-HCTTS-EEEEE------HHHHHHHHHHHHHTT-----------SHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh-ccccccceeec------HHHHHHHHHHHHHcc-----------cchhhhhhh
Confidence            456899999999999999999998732 12223466764      345555555544211           123344445


Q ss_pred             ccCcEEEEEccccccc---cccc-ccccCC-CCCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWERL---DLSK-TGVSLS-DCQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~---~~~~-~~~~l~-~~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      ++ -=+|++||++...   .|++ +...+. -...|-+||+|++...-.                   +++.+.++-.++
T Consensus        96 ~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   96 RS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             CT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             hc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence            43 3478899997642   2222 111111 113466899999765443                   556666666666


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      +.+.+.......   -+++++-|++.+.+..-
T Consensus       175 l~~~a~~~~~~l---~~~v~~~l~~~~~~~~r  203 (219)
T PF00308_consen  175 LQKKAKERGIEL---PEEVIEYLARRFRRDVR  203 (219)
T ss_dssp             HHHHHHHTT--S----HHHHHHHHHHTTSSHH
T ss_pred             HHHHHHHhCCCC---cHHHHHHHHHhhcCCHH
Confidence            666654333221   14555555555554443

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.

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.82  E-value=0.00039  Score=77.48  Aligned_cols=171  Identities=13%  Similarity=0.151  Sum_probs=97.4

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc--------------------CCCCEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN--------------------HCFDLVIFV  211 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~~F~~~~wv  211 (863)
                      ++++|.+..++.+.+++..+.. ..+.++|+.|+||||+|+.+++......                    .+++. +++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~-~~i   95 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDV-LEI   95 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCce-EEe
Confidence            5689999999999999987665 5688999999999999999887652100                    01111 111


Q ss_pred             EeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEE
Q 038405          212 AVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVF  289 (863)
Q Consensus       212 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iiv  289 (863)
                      ..........+ +++.+.+..                  .-..+++-++|+|+++...  ....+...+.....+..+|+
T Consensus        96 ~g~~~~gid~i-r~i~~~l~~------------------~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il  156 (451)
T PRK06305         96 DGASHRGIEDI-RQINETVLF------------------TPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFL  156 (451)
T ss_pred             eccccCCHHHH-HHHHHHHHh------------------hhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEE
Confidence            11011111111 011111100                  0112567789999987542  23334333333334556666


Q ss_pred             eecch-hhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHH
Q 038405          290 TTRSE-EVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITI  346 (863)
Q Consensus       290 TTr~~-~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  346 (863)
                      +|... .+.           +.++++++..+.+...+......   -..+.++.|++.++|.+ .|+..+
T Consensus       157 ~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~---i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        157 ATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIE---TSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             EeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            66432 221           77788988888777665432211   12567888999999966 344443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.82  E-value=0.00017  Score=73.23  Aligned_cols=46  Identities=17%  Similarity=0.282  Sum_probs=31.7

Q ss_pred             cccc-chhh-HHHHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTV-GADS-KLDEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~v-Gr~~-~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|+ |... .+..+.++... ...+.+.|+|..|+|||+||+.+++..
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3445 5433 33444444432 345678999999999999999999875

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.79  E-value=0.0005  Score=79.42  Aligned_cols=168  Identities=12%  Similarity=0.167  Sum_probs=99.8

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhcccc--------------------ccCCCCEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLD--------------------VNHCFDLVIFV  211 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~--------------------~~~~F~~~~wv  211 (863)
                      ++++|.+..++.+..++..+... .+.++|..|+||||+|+.++....-                    ...+|+. ..+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EEe
Confidence            56899999999999999887664 4789999999999999887775410                    0112332 122


Q ss_pred             EeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE
Q 038405          212 AVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF  289 (863)
Q Consensus       212 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv  289 (863)
                      ..+....+..+. ++++++....                  ..+++-++|+|++...  ..+..+...+.....++.+|+
T Consensus        96 d~~~~~~vd~Ir-~li~~~~~~P------------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL  156 (614)
T PRK14971         96 DAASNNSVDDIR-NLIEQVRIPP------------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFIL  156 (614)
T ss_pred             cccccCCHHHHH-HHHHHHhhCc------------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            222222222222 1112111110                  1245568899998764  234455444443344566665


Q ss_pred             ee-cchhhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          290 TT-RSEEVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       290 TT-r~~~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                      +| +...+.           +.+++.++....+...+.......   ..+.+..|++.++|..--+
T Consensus       157 ~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i---~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        157 ATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITA---EPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             EeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            55 333332           778889988888877664333211   2467889999999976433

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.78  E-value=0.00012  Score=78.24  Aligned_cols=61  Identities=21%  Similarity=0.303  Sum_probs=29.9

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC-Cccccch
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT-SIEELPS  586 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~-~i~~lP~  586 (863)
                      |++++.|++++|.++.+|.  +  ..+|+.|.+++|..+..+|..+.  .+|++|++++| .+..+|.
T Consensus        51 ~~~l~~L~Is~c~L~sLP~--L--P~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~  112 (426)
T PRK15386         51 ARASGRLYIKDCDIESLPV--L--PNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPE  112 (426)
T ss_pred             hcCCCEEEeCCCCCcccCC--C--CCCCcEEEccCCCCcccCCchhh--hhhhheEccCccccccccc
Confidence            4455555555555555541  1  12455555555545555554332  34555555555 4444443

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

Probab=97.78  E-value=4e-06  Score=73.32  Aligned_cols=89  Identities=24%  Similarity=0.307  Sum_probs=60.5

Q ss_pred             CCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecC
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD  600 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~  600 (863)
                      ..|...++++|.++.+|+.+-.+++-+..|+|++| .+..+|.++..++.|+.|+++.|.+...|..+..|.+|-.|+..
T Consensus        53 ~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~  131 (177)
T KOG4579|consen   53 YELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSP  131 (177)
T ss_pred             ceEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCC
Confidence            45566677777777777776666667777777777 67777777777777777777777777777776667777777766


Q ss_pred             CCCCccccchh
Q 038405          601 GMRHFHLIPAR  611 (863)
Q Consensus       601 ~~~~l~~lp~~  611 (863)
                      ++. ...+|-.
T Consensus       132 ~na-~~eid~d  141 (177)
T KOG4579|consen  132 ENA-RAEIDVD  141 (177)
T ss_pred             CCc-cccCcHH
Confidence            665 4444443

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.78  E-value=0.00057  Score=67.55  Aligned_cols=50  Identities=18%  Similarity=0.392  Sum_probs=39.6

Q ss_pred             ccCCccccchhhHHHHHHH----hhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          149 GMATEKTVGADSKLDEVWG----CIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       149 ~~~~~~~vGr~~~~~~l~~----~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+-+.++|.|..++.|++    ++......-+.+||..|.|||++++++.+.+
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            3444678999998888775    3344455567889999999999999999887

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.77  E-value=0.00078  Score=68.89  Aligned_cols=182  Identities=16%  Similarity=0.087  Sum_probs=108.9

Q ss_pred             hHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhccccccCCC----CEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          160 SKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF----DLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       160 ~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F----~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      +.++++.+++..   ...+-+.|+|.+|+|||++++++...+- ....-    -.++.|.....++...+...|+.+++.
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp-~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHP-PQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCC-CCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            345555555643   3455699999999999999999987662 11111    157788888899999999999999998


Q ss_pred             CcccccccChhhHHHHHHHHhcc-CcEEEEEccccccc--------ccccccccCCCCCCCeEEEEeecchhhh------
Q 038405          233 SDYIWNMKGEYDRAVEILISLRR-KKFVLLLDDVWERL--------DLSKTGVSLSDCQNGSKIVFTTRSEEVC------  297 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~--------~~~~~~~~l~~~~~gs~iivTTr~~~v~------  297 (863)
                      +..  ...+...+.......++. +--+||+|.+.+.-        +.-.....+...-.=+-|.|-|+.-.-+      
T Consensus       123 P~~--~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~Q  200 (302)
T PF05621_consen  123 PYR--PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQ  200 (302)
T ss_pred             ccC--CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHH
Confidence            863  233444445555555654 55689999997631        1111111222222334455555544333      


Q ss_pred             ---------cccCCH-HHHHHHHhHhhC--ccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 ---------VECLSP-EAALDLFRYKVG--EDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 ---------l~~L~~-~~a~~Lf~~~~~--~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                               +..... +|...|+.....  .-...+.-...++++.|...++|+.--+.
T Consensus       201 La~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  201 LASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             HHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence                     333333 344445433221  11112223457899999999999874433

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.77  E-value=0.00052  Score=76.97  Aligned_cols=171  Identities=10%  Similarity=0.123  Sum_probs=98.9

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhcccccc-CC----------------CC-EEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVN-HC----------------FD-LVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~----------------F~-~~~wv~~  213 (863)
                      +++||-+..++.+...+..+... ++.++|..|+||||+|+.+++...... ..                ++ .++.+..
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~elda   93 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDA   93 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEecc
Confidence            56899999999999999777655 568999999999999998876641000 00                00 1111111


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEee
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTT  291 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTT  291 (863)
                      +....+..+.. +++.....                  -..+++-++|+|++...  .....+...+-.....+++|++|
T Consensus        94 as~~gId~IRe-lie~~~~~------------------P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~t  154 (535)
T PRK08451         94 ASNRGIDDIRE-LIEQTKYK------------------PSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILAT  154 (535)
T ss_pred             ccccCHHHHHH-HHHHHhhC------------------cccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEE
Confidence            11111111111 11110000                  01145668899999754  23334444443334567777666


Q ss_pred             cchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          292 RSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       292 r~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      .+..-.            +.+++.++....+...+...+...   .++.+..|++.++|.+--+..
T Consensus       155 td~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i---~~~Al~~Ia~~s~GdlR~aln  217 (535)
T PRK08451        155 TDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSY---EPEALEILARSGNGSLRDTLT  217 (535)
T ss_pred             CChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCcHHHHHH
Confidence            654211            788888888888776654332211   256788999999998844433

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.77  E-value=0.0015  Score=69.59  Aligned_cols=184  Identities=10%  Similarity=0.119  Sum_probs=110.7

Q ss_pred             CccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          152 TEKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       152 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      +...+||+.+++.+.+++..    ...+.+.|.|-+|.|||.+...++.+...-... -.++++....-.....++..|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~-~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKS-PVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhccc-ceeEEEeeccccchHHHHHHHH
Confidence            35678999999999999844    566789999999999999999999887211111 2456776665455667777777


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccC--cEEEEEccccccc--ccccccccCC-CCCCCeEEEEeecchhhh-----
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRK--KFVLLLDDVWERL--DLSKTGVSLS-DCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~--~~~~~~~~l~-~~~~gs~iivTTr~~~v~-----  297 (863)
                      ..+.....  ......+....+.+..++.  -+|+|+|.++.-.  .-..+...|- ..-++||+|+.---...-     
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHH
Confidence            66511100  0112244555666666543  6899999987531  1111111121 123466665432211111     


Q ss_pred             ----------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          298 ----------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       298 ----------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                                      ..+.+.++-.++|..+.....  ..+......+-+++||.|.-
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~--t~~~~~~Aie~~ArKvaa~S  362 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES--TSIFLNAAIELCARKVAAPS  362 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc--ccccchHHHHHHHHHhccCc
Confidence                            677899999999998875432  12223345555566655443

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.76  E-value=0.00015  Score=74.86  Aligned_cols=115  Identities=17%  Similarity=0.223  Sum_probs=80.4

Q ss_pred             ccccchhhHHHHHHHhhccCCc---eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE---QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~---~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +.+.+|+..+..+..++.+...   ..|-|+|-+|.|||.+++++.+.. .  -   ..+|+++-+.++..-++.+|+.+
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~-n--~---~~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL-N--L---ENVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc-C--C---cceeeehHHhccHHHHHHHHHHH
Confidence            4567999999999999965432   345789999999999999999876 2  2   35899999999999999999999


Q ss_pred             cCCCcccccc-cC-hhh---HHHHHHH--Hh--ccCcEEEEEccccccccccc
Q 038405          230 LDISDYIWNM-KG-EYD---RAVEILI--SL--RRKKFVLLLDDVWERLDLSK  273 (863)
Q Consensus       230 l~~~~~~~~~-~~-~~~---~~~~l~~--~l--~~k~~LlVlDdv~~~~~~~~  273 (863)
                      .+..+..... .. -+.   ....+.+  ..  +++.++||||+++.-.+.+.
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a  132 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDA  132 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccch
Confidence            8632211111 11 111   1222222  11  14689999999987655544

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.75  E-value=0.00063  Score=78.57  Aligned_cols=184  Identities=11%  Similarity=0.061  Sum_probs=100.0

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.+..+..|..++..+.. ..+.++|..|+||||+|+.+++... - ...+..    ....+..-...+.+.....
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~-c-~~~~~~----~~~~Cg~C~~C~~i~~g~h   89 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLN-C-LNSDKP----TPEPCGKCELCRAIAAGNA   89 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhc-C-CCcCCC----CCCCCcccHHHHHHhcCCC
Confidence            5678999999999999977654 5788999999999999999988762 1 111000    0011111122222222111


Q ss_pred             CCccccc---ccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh-hh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE-VC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~-v~---  297 (863)
                      .......   ....+ .+..+.+.+     .+++-++|+|+++..  ..+..+...+........+|++|.+.. +.   
T Consensus        90 ~D~~ei~~~~~~~vd-~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTI  168 (620)
T PRK14948         90 LDVIEIDAASNTGVD-NIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTI  168 (620)
T ss_pred             ccEEEEeccccCCHH-HHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHH
Confidence            1000000   01111 112222221     245668899999854  334445444433334455555554332 22   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                              +..++.++....+...+.......   ..+.+..|++.++|.+..+...
T Consensus       169 rSRc~~~~f~~l~~~ei~~~L~~ia~kegi~i---s~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        169 ISRCQRFDFRRIPLEAMVQHLSEIAEKESIEI---EPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             HhheeEEEecCCCHHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence                    567788887777766554322111   1456888999999987544433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.75  E-value=0.00048  Score=79.45  Aligned_cols=178  Identities=13%  Similarity=0.107  Sum_probs=97.2

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.+..++.+..++..+++ ..+.++|+.|+||||+|+.++....-......   +    .++   ......   .+
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~---~----~pC---~~C~~~---~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDL---L----EPC---QECIEN---VN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCC---C----Cch---hHHHHh---hc
Confidence            5688999999999999977654 45679999999999999998876511000000   0    000   000000   00


Q ss_pred             CCcccc--cc---cChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEE-eecchhhh-
Q 038405          232 ISDYIW--NM---KGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVF-TTRSEEVC-  297 (863)
Q Consensus       232 ~~~~~~--~~---~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iiv-TTr~~~v~-  297 (863)
                      ......  ..   ...++ ++.+.+.+     .+++-++|+|++...  ..+..+...+-.......+|+ ||+...+. 
T Consensus        85 ~~~Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~  163 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPL  163 (725)
T ss_pred             CCCcEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhH
Confidence            000000  00   01111 22232222     256678999998753  334444444433333445454 44433332 


Q ss_pred             ----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHHH
Q 038405          298 ----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITIA  347 (863)
Q Consensus       298 ----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~  347 (863)
                                +.+++.++..+.+...+......   -..+.++.|++.++|.+- |+..+-
T Consensus       164 TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~---id~eAl~~LA~lS~GslR~AlslLe  221 (725)
T PRK07133        164 TILSRVQRFNFRRISEDEIVSRLEFILEKENIS---YEKNALKLIAKLSSGSLRDALSIAE  221 (725)
T ss_pred             HHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence                      77888888888777655332211   124567889999988764 444333

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.73  E-value=0.0007  Score=75.98  Aligned_cols=166  Identities=11%  Similarity=0.084  Sum_probs=93.1

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccC------------------CCCEEEEEEe
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNH------------------CFDLVIFVAV  213 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~------------------~F~~~~wv~~  213 (863)
                      .+++|-+..+..+.+++..+... ++.++|+.|+||||+|+.++........                  .|...+++..
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eida   95 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDA   95 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeC
Confidence            46789999999999999776544 5678999999999999998876410000                  0111111211


Q ss_pred             CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeE
Q 038405          214 SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSK  286 (863)
Q Consensus       214 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~  286 (863)
                      +....                       .+ ....+.+..     .+++-++|+|+++..  .....+...+........
T Consensus        96 as~~g-----------------------vd-~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v  151 (486)
T PRK14953         96 ASNRG-----------------------ID-DIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTI  151 (486)
T ss_pred             ccCCC-----------------------HH-HHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeE
Confidence            11111                       11 111222222     356679999998754  233344333433334555


Q ss_pred             EEEeecc-hhhh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          287 IVFTTRS-EEVC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       287 iivTTr~-~~v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      +|++|.+ ..+.           +.+++.++....+...+......   -..+.+..|++.++|.+-.+..
T Consensus       152 ~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~---id~~al~~La~~s~G~lr~al~  219 (486)
T PRK14953        152 FILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE---YEEKALDLLAQASEGGMRDAAS  219 (486)
T ss_pred             EEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            5555533 2221           66677777777666655332211   1245667788888886654433

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.71  E-value=0.00012  Score=80.41  Aligned_cols=160  Identities=18%  Similarity=0.243  Sum_probs=89.0

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      +++.|+++.++++.+.+..             ...+-|.++|++|+|||++|+++++..   ...     |+.++.    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~-----~i~v~~----  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NAT-----FIRVVG----  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh---CCC-----EEEeeh----
Confidence            4577999999999887621             234568899999999999999999876   222     222221    


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEccccccc------------c----cccccccCC--C
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWERL------------D----LSKTGVSLS--D  280 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~------------~----~~~~~~~l~--~  280 (863)
                      ..+.    ....       . ........+.+.. ...+.+|++||++...            .    +..+...+.  .
T Consensus       199 ~~l~----~~~~-------g-~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 SELV----QKFI-------G-EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             HHHh----Hhhc-------c-chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence            1111    1110       0 1111222222222 3467899999997521            0    111111111  1


Q ss_pred             CCCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          281 CQNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ...+..||.||......               +...+.++-.++|+..........+.+    ...+++.+.|.-
T Consensus       267 ~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~s  337 (389)
T PRK03992        267 PRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD----LEELAELTEGAS  337 (389)
T ss_pred             CCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCCC
Confidence            12356677777654322               567778888888887765432222222    355666666653

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.69  E-value=8.8e-05  Score=79.30  Aligned_cols=82  Identities=24%  Similarity=0.360  Sum_probs=59.9

Q ss_pred             ccceEEEeccCCccccCCCCCCCccEEEeecc-cccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          500 REDFRLSLWGSSIEYLPETPCPHLQTLLVRFT-VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      ....+|.+.++.++.+|. ..++|++|.+.+| .+..+|.. +  ..+|++|++++|..+..+|..      |++|++++
T Consensus        52 ~~l~~L~Is~c~L~sLP~-LP~sLtsL~Lsnc~nLtsLP~~-L--P~nLe~L~Ls~Cs~L~sLP~s------Le~L~L~~  121 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV-LPNELTEITIENCNNLTTLPGS-I--PEGLEKLTVCHCPEISGLPES------VRSLEIKG  121 (426)
T ss_pred             cCCCEEEeCCCCCcccCC-CCCCCcEEEccCCCCcccCCch-h--hhhhhheEccCcccccccccc------cceEEeCC
Confidence            466788999888888883 3567999999987 66777754 2  358999999998778888864      56666665


Q ss_pred             C---Cccccchhhhcc
Q 038405          579 T---SIEELPSEIMYL  591 (863)
Q Consensus       579 ~---~i~~lP~~i~~L  591 (863)
                      +   .+..+|+++..|
T Consensus       122 n~~~~L~~LPssLk~L  137 (426)
T PRK15386        122 SATDSIKNVPNGLTSL  137 (426)
T ss_pred             CCCcccccCcchHhhe
Confidence            5   366777765443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.68  E-value=0.0002  Score=74.35  Aligned_cols=45  Identities=22%  Similarity=0.259  Sum_probs=32.7

Q ss_pred             cccchhhHHHHHHHh---hc------------cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGC---IE------------DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~---L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..+++|.+.   ..            .+...-+.++|++|+||||+|+.+++..
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            478887776666543   21            1234567899999999999999998764

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.

>PF14516 AAA_35: AAA-like domain

Probab=97.67  E-value=0.0028  Score=68.04  Aligned_cols=189  Identities=14%  Similarity=0.172  Sum_probs=114.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-----CCHHH----HH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-----GNLEK----IQ  223 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-----~~~~~----~~  223 (863)
                      +..|.|...-+++.+.+.++ -..+.|.|+-.+|||||...+.+...  +..+ .++++++..-     .+..+    +.
T Consensus        11 ~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~--~~~~-~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen   11 PFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQ--QQGY-RCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHH--HCCC-EEEEEEeecCCCcccCCHHHHHHHHH
Confidence            45679997778888888664 36889999999999999999988872  2333 4557776542     23444    44


Q ss_pred             HHHHHHcCCCccc---cc--ccChhhHHHHHHHHh-c--cCcEEEEEccccccccc----ccccccC----------CCC
Q 038405          224 EVIRKKLDISDYI---WN--MKGEYDRAVEILISL-R--RKKFVLLLDDVWERLDL----SKTGVSL----------SDC  281 (863)
Q Consensus       224 ~~i~~~l~~~~~~---~~--~~~~~~~~~~l~~~l-~--~k~~LlVlDdv~~~~~~----~~~~~~l----------~~~  281 (863)
                      ..|.++++.....   +.  ..........+.+.+ +  +++.+|++|+|+.....    .++...+          +..
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence            5555566554311   00  112223333444432 2  58999999999853221    1111111          000


Q ss_pred             CCCeEEEEee-cchhhh--------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          282 QNGSKIVFTT-RSEEVC--------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       282 ~~gs~iivTT-r~~~v~--------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      .+=+-|++.+ +.....              +.+++.+|..+|....-..-    .   ....++|...+||+|.-+..+
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~----~---~~~~~~l~~~tgGhP~Lv~~~  239 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF----S---QEQLEQLMDWTGGHPYLVQKA  239 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC----C---HHHHHHHHHHHCCCHHHHHHH
Confidence            1111122221 111111              88999999999988763221    1   333899999999999999999


Q ss_pred             HHHHhC
Q 038405          347 ARAMSS  352 (863)
Q Consensus       347 ~~~l~~  352 (863)
                      +..+..
T Consensus       240 ~~~l~~  245 (331)
T PF14516_consen  240 CYLLVE  245 (331)
T ss_pred             HHHHHH
Confidence            999976

>CHL00181 cbbX CbbX; Provisional

Probab=97.66  E-value=0.00058  Score=71.34  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.++|.+|+||||+|+.++...
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999998764

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.65  E-value=0.00031  Score=78.32  Aligned_cols=156  Identities=13%  Similarity=0.132  Sum_probs=94.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ..-+.|+|..|+|||+|++++++.... ...-..+++++      ..++...+...++...         .....+++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~------~~~f~~~~~~~l~~~~---------~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMS------GDEFARKAVDILQKTH---------KEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEE------HHHHHHHHHHHHHHhh---------hHHHHHHHHh
Confidence            356889999999999999999986521 12223445554      3456666666553210         1223344444


Q ss_pred             ccCcEEEEEccccccc---cc-ccccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWERL---DL-SKTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~---~~-~~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      + +.-+||+||+....   .+ +.+...+.. ...|..||+|+......                   +++++.++-.++
T Consensus       205 ~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        205 C-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             c-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHH
Confidence            4 34478899996432   12 223222221 23345788887654322                   788899999999


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHH
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA  347 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  347 (863)
                      +.+++...... ..-.+++..-|++.++|.|-.+..+.
T Consensus       284 L~~~~~~~gl~-~~l~~evl~~Ia~~~~gd~R~L~gaL  320 (450)
T PRK14087        284 IKKEIKNQNIK-QEVTEEAINFISNYYSDDVRKIKGSV  320 (450)
T ss_pred             HHHHHHhcCCC-CCCCHHHHHHHHHccCCCHHHHHHHH
Confidence            99887543211 11236788999999999986665544

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

Probab=97.64  E-value=1e-05  Score=70.88  Aligned_cols=107  Identities=21%  Similarity=0.252  Sum_probs=84.9

Q ss_pred             ccEEEeecccccccchh--hhhcCCCccEEeccCCcCccccchhhhcc-cccceeeccCCCccccchhhhcccCccEEec
Q 038405          523 LQTLLVRFTVLEIFPHR--FFESMGALKVLDLSYNLDLTQLPAEMGAL-INLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~--~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L-~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +..++|+.|.+..++..  .+....+|...+|++| ..+.+|+.+... +-+.+|++++|.|+.+|.++..++.|+.|++
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl  107 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNL  107 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhccc
Confidence            44566777765545432  2456678889999999 899999988754 5899999999999999999999999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhh
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      +.|. +...|.- |..|.+|-.|+..+|...++
T Consensus       108 ~~N~-l~~~p~v-i~~L~~l~~Lds~~na~~ei  138 (177)
T KOG4579|consen  108 RFNP-LNAEPRV-IAPLIKLDMLDSPENARAEI  138 (177)
T ss_pred             ccCc-cccchHH-HHHHHhHHHhcCCCCccccC
Confidence            9998 7777765 55688888888877665444

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.60  E-value=0.0016  Score=74.45  Aligned_cols=180  Identities=13%  Similarity=0.044  Sum_probs=96.9

Q ss_pred             ccccchhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|-+..++.+..++.++... .+.++|+.|+||||+|+.+++... -......   ..+...    ...+.|...-.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~-c~~~~~~---~pC~~C----~~C~~i~~~~~   87 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLN-CVNGPTP---MPCGEC----SSCKSIDNDNS   87 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc-cccCCCC---CCCccc----hHHHHHHcCCC
Confidence            56899999999999999876554 588999999999999999988752 1110000   000000    00011111000


Q ss_pred             CCccccc---ccChhhHHHHHHHH-----hccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecch-hhh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILIS-----LRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSE-EVC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~-~v~---  297 (863)
                      .......   ....++.. .+.+.     ..+++-++|+|++....  .+..+...+......+.+|++|... .+.   
T Consensus        88 ~dv~~idgas~~~vddIr-~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI  166 (563)
T PRK06647         88 LDVIEIDGASNTSVQDVR-QIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATI  166 (563)
T ss_pred             CCeEEecCcccCCHHHHH-HHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHH
Confidence            0000000   01111111 12211     23566689999987543  3444544444434566666655432 221   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                              ..+++.++..+.+...+......   -..+.+..|++.++|.+-.+.
T Consensus       167 ~SRc~~~~f~~l~~~el~~~L~~i~~~egi~---id~eAl~lLa~~s~GdlR~al  218 (563)
T PRK06647        167 KSRCQHFNFRLLSLEKIYNMLKKVCLEDQIK---YEDEALKWIAYKSTGSVRDAY  218 (563)
T ss_pred             HHhceEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence                    66677777777776655332211   125667778888888774333

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.59  E-value=0.00036  Score=76.62  Aligned_cols=45  Identities=27%  Similarity=0.381  Sum_probs=36.3

Q ss_pred             cccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++.|.+..+++|.+.+.-             ...+-+.++|++|+|||++|+.+++..
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            456899999888887631             234568899999999999999999976

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.58  E-value=0.0013  Score=75.93  Aligned_cols=186  Identities=15%  Similarity=0.165  Sum_probs=97.8

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.+..++.+.+++..+.+ ..+.++|..|+||||+|+.+++... -....+       ...++.-.....|...-.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~-c~~~~~-------~~~c~~c~~c~~i~~g~~   87 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN-CEQGLT-------AEPCNVCPPCVEITEGRS   87 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc-CCCCCC-------CCCCCccHHHHHHhcCCC
Confidence            5689999999999999987665 4568999999999999999887651 111000       000000011111111000


Q ss_pred             CCccccc---ccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeec-chhhh---
Q 038405          232 ISDYIWN---MKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTR-SEEVC---  297 (863)
Q Consensus       232 ~~~~~~~---~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr-~~~v~---  297 (863)
                      ......+   ....++ +..+.+.+     .+++-++|+|+++...  ....+...+-.....+.+|++|. ...+.   
T Consensus        88 ~d~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI  166 (576)
T PRK14965         88 VDVFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITI  166 (576)
T ss_pred             CCeeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHH
Confidence            0000000   001111 12222222     2455688999997542  23344433333334556665544 33332   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIARAM  350 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l  350 (863)
                              +.+++.++....+...+.......   ..+....|++.++|.. .|+..+-..+
T Consensus       167 ~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i---~~~al~~la~~a~G~lr~al~~Ldqli  225 (576)
T PRK14965        167 LSRCQRFDFRRIPLQKIVDRLRYIADQEGISI---SDAALALVARKGDGSMRDSLSTLDQVL  225 (576)
T ss_pred             HHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence                    667888887777766553322111   2566778888888865 4444443333

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.58  E-value=0.0017  Score=64.63  Aligned_cols=46  Identities=22%  Similarity=0.365  Sum_probs=39.4

Q ss_pred             ccccchhhHHHHHHHhhc-----cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE-----DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|||.++.++++.=++.     +...--|.++|++|.||||||.-+++..
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em   76 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL   76 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence            579999999888876663     3556779999999999999999999987

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.54  E-value=0.00099  Score=69.66  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -+.++|.+|+||||+|+.++...
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999998877655

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.

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.53  E-value=2.9e-05  Score=76.96  Aligned_cols=81  Identities=22%  Similarity=0.212  Sum_probs=54.3

Q ss_pred             CccEEeccCCcCccccch--hh-hcccccceeeccCCCcc---ccchhhhcccCccEEecCCCCCccccchhhh-cCCCC
Q 038405          546 ALKVLDLSYNLDLTQLPA--EM-GALINLRCLNLSNTSIE---ELPSEIMYLKNLKILLLDGMRHFHLIPARVF-SSLLS  618 (863)
Q Consensus       546 ~L~~L~Ls~~~~i~~lp~--~i-~~L~~L~~L~L~~~~i~---~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i-~~L~~  618 (863)
                      .+..|.+.++ .+...-.  .| ....+++.|||.+|.|+   ++..-+.+|+.|++|+++.|+ +...-.. . -.+.+
T Consensus        46 a~ellvln~~-~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~-L~s~I~~-lp~p~~n  122 (418)
T KOG2982|consen   46 ALELLVLNGS-IIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNS-LSSDIKS-LPLPLKN  122 (418)
T ss_pred             chhhheecCC-CCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCc-CCCcccc-Ccccccc
Confidence            4556666676 5554432  23 25788999999999887   455556799999999999886 3221111 1 13468


Q ss_pred             CceeeccCcch
Q 038405          619 LKVFSLFSTEL  629 (863)
Q Consensus       619 L~~L~l~~~~~  629 (863)
                      |++|-+.++++
T Consensus       123 l~~lVLNgT~L  133 (418)
T KOG2982|consen  123 LRVLVLNGTGL  133 (418)
T ss_pred             eEEEEEcCCCC
Confidence            88888887653

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.52  E-value=0.00059  Score=81.42  Aligned_cols=46  Identities=17%  Similarity=0.296  Sum_probs=40.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||+++++++++.|......-+.++|.+|+|||++|+.++.+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999977656667899999999999999999876

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.51  E-value=0.00087  Score=74.66  Aligned_cols=145  Identities=20%  Similarity=0.190  Sum_probs=82.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      ..-+.|+|.+|+|||+|++++++...  ....+ .++|++.      .++..++...+...       ..    ..+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~--~~~~~~~v~yi~~------~~f~~~~~~~~~~~-------~~----~~f~~~  190 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYITS------EKFLNDLVDSMKEG-------KL----NEFREK  190 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH--HhCCCCeEEEEEH------HHHHHHHHHHHhcc-------cH----HHHHHH
Confidence            34699999999999999999999862  22222 5667653      34555555544211       11    223334


Q ss_pred             hccCcEEEEEccccccc---cc-ccccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHH
Q 038405          253 LRRKKFVLLLDDVWERL---DL-SKTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALD  308 (863)
Q Consensus       253 l~~k~~LlVlDdv~~~~---~~-~~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~  308 (863)
                      ++.+.-+|++||+....   .+ ..+...+.. ...|..||+||....-.                   +++.+.++-..
T Consensus       191 ~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~  270 (440)
T PRK14088        191 YRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKK  270 (440)
T ss_pred             HHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHH
Confidence            44455689999997431   11 122222211 12345788888532211                   55666777777


Q ss_pred             HHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          309 LFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       309 Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ++.+.+.......   -+++...|++.+.|.-
T Consensus       271 IL~~~~~~~~~~l---~~ev~~~Ia~~~~~~~  299 (440)
T PRK14088        271 IARKMLEIEHGEL---PEEVLNFVAENVDDNL  299 (440)
T ss_pred             HHHHHHHhcCCCC---CHHHHHHHHhccccCH
Confidence            7777664322211   1566777777776653

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.51  E-value=0.00033  Score=76.39  Aligned_cols=46  Identities=26%  Similarity=0.337  Sum_probs=36.9

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.+..+++|.+.+.    .         ...+-|.++|++|.|||++|+.+++..
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            456799988888887662    1         234668899999999999999999876

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.49  E-value=0.00077  Score=81.07  Aligned_cols=168  Identities=13%  Similarity=0.164  Sum_probs=93.2

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccC----CCCEEEE-EEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNH----CFDLVIF-VAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~w-v~~~~~~~~~~~~~~i~  227 (863)
                      ++++||+.++.+++..|......-+.++|.+|+||||+|+.++.+.. ...    -.+..+| +.++.      +    .
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~-~~~v~~~l~~~~i~~l~l~~------l----~  255 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIA-AGDVPPALRNVRLLSLDLGL------L----Q  255 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHh-hCCCCccccCCeEEEeehhh------h----h
Confidence            56899999999999999776666677999999999999999998762 111    1122232 22211      0    0


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccc---------ccccccccCCCCCCC-eEEEEeecchh
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL---------DLSKTGVSLSDCQNG-SKIVFTTRSEE  295 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~---------~~~~~~~~l~~~~~g-s~iivTTr~~~  295 (863)
                         ....   .....++....+.+.++  +++.+|++|++....         +...+..+.  -..| -++|-||...+
T Consensus       256 ---ag~~---~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~--l~~G~l~~IgaTT~~e  327 (852)
T TIGR03345       256 ---AGAS---VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPA--LARGELRTIAATTWAE  327 (852)
T ss_pred             ---cccc---cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHH--hhCCCeEEEEecCHHH
Confidence               0000   01122233333333332  468999999987532         111122222  2233 45555555432


Q ss_pred             h--------h---------cccCCHHHHHHHHhHhhCc-cccCCCCChHHHHHHHHHHcCCC
Q 038405          296 V--------C---------VECLSPEAALDLFRYKVGE-DVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       296 v--------~---------l~~L~~~~a~~Lf~~~~~~-~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      .        |         +++++.++..+++...... .....-.-..+....+++.+++.
T Consensus       328 ~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       328 YKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             HhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            2        1         8889999999997544321 00001111255666777776543

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.46  E-value=0.0033  Score=72.20  Aligned_cols=180  Identities=14%  Similarity=0.090  Sum_probs=94.9

Q ss_pred             ccccchhhHHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|.+..++.+.+++..+. ...+.++|+.|+||||+|+.++.... ....-+       ..+++.-...+.|.....
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~-c~~~~~-------~~pC~~C~~C~~i~~g~~   87 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN-CLNPPD-------GEPCNECEICKAITNGSL   87 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCccHHHHHHhcCCC
Confidence            568999999999999997755 45577899999999999999876641 111000       011111111222211110


Q ss_pred             CCcccccc--cChhhHHHHHHHH-----hccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeec-chhhh----
Q 038405          232 ISDYIWNM--KGEYDRAVEILIS-----LRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTR-SEEVC----  297 (863)
Q Consensus       232 ~~~~~~~~--~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr-~~~v~----  297 (863)
                      ......+.  ....+....+.+.     ..+++-++|+|++...  ..+..+...+........+|++|. ...+.    
T Consensus        88 ~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~  167 (559)
T PRK05563         88 MDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATIL  167 (559)
T ss_pred             CCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHH
Confidence            00000000  0011112222222     1346678899999754  234444433333233445554443 33222    


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                             ..+++.++..+.+...+...+...   ..+....|++.++|.+..+
T Consensus       168 SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i---~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        168 SRCQRFDFKRISVEDIVERLKYILDKEGIEY---EDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             hHheEEecCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence                   567777777777766554322111   1466778888888876433

>PRK06620 hypothetical protein; Validated

Probab=97.45  E-value=0.00049  Score=68.55  Aligned_cols=24  Identities=29%  Similarity=0.123  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+.|||++|+|||+|++.+++..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            668999999999999999987765

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.44  E-value=0.00043  Score=64.24  Aligned_cols=89  Identities=21%  Similarity=0.062  Sum_probs=49.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      ..+.|+|++|+||||+|+.++....   .....++++..+........... ........   ...........+.+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~---~~~~~~~~~~~~~~~~~   75 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLL-LIIVGGKK---ASGSGELRLRLALALAR   75 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEEccccCHHHHH-hhhhhccC---CCCCHHHHHHHHHHHHH
Confidence            5789999999999999999998872   22234556554443222211111 00010000   11222333334444444


Q ss_pred             cC-cEEEEEcccccccc
Q 038405          255 RK-KFVLLLDDVWERLD  270 (863)
Q Consensus       255 ~k-~~LlVlDdv~~~~~  270 (863)
                      .. ..+|++|++.....
T Consensus        76 ~~~~~viiiDei~~~~~   92 (148)
T smart00382       76 KLKPDVLILDEITSLLD   92 (148)
T ss_pred             hcCCCEEEEECCcccCC
Confidence            43 49999999987543

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.

>PRK10536 hypothetical protein; Provisional

Probab=97.44  E-value=0.0017  Score=65.04  Aligned_cols=137  Identities=14%  Similarity=0.137  Sum_probs=75.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe----CC-----CCCHHH--
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV----SK-----EGNLEK--  221 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~----~~-----~~~~~~--  221 (863)
                      ..+.++......++.++.+.  .+|.+.|.+|.|||+||.++..+.. ..+.|+.++...-    ++     +.+..+  
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l-~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~  131 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEAL-IHKDVDRIIVTRPVLQADEDLGFLPGDIAEKF  131 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHH-hcCCeeEEEEeCCCCCchhhhCcCCCCHHHHH
Confidence            45668888888899888764  4999999999999999999887531 1234554443321    11     111211  


Q ss_pred             --HHHHHHHHcCCCcccccccChhhHHH--------HHHHHhccCcE---EEEEcccccccccccccccCCCCCCCeEEE
Q 038405          222 --IQEVIRKKLDISDYIWNMKGEYDRAV--------EILISLRRKKF---VLLLDDVWERLDLSKTGVSLSDCQNGSKIV  288 (863)
Q Consensus       222 --~~~~i~~~l~~~~~~~~~~~~~~~~~--------~l~~~l~~k~~---LlVlDdv~~~~~~~~~~~~l~~~~~gs~ii  288 (863)
                        .++.+...+..-.   .....+....        .=..+++|..+   +||+|...+... ..+...+...+.+|+||
T Consensus       132 ~p~~~pi~D~L~~~~---~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~-~~~k~~ltR~g~~sk~v  207 (262)
T PRK10536        132 APYFRPVYDVLVRRL---GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTA-AQMKMFLTRLGENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHh---ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCH-HHHHHHHhhcCCCCEEE
Confidence              1222222221000   0000000000        00235667554   999999987533 22222333456899999


Q ss_pred             Eeecchhh
Q 038405          289 FTTRSEEV  296 (863)
Q Consensus       289 vTTr~~~v  296 (863)
                      +|=-..++
T Consensus       208 ~~GD~~Qi  215 (262)
T PRK10536        208 VNGDITQC  215 (262)
T ss_pred             EeCChhhc
Confidence            98765444

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.42  E-value=0.001  Score=73.97  Aligned_cols=146  Identities=21%  Similarity=0.212  Sum_probs=78.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ...+.|+|..|+|||+|++++++... ....=..++|++.      .++...+...+...       .    ...+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~----~~~~~~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVSS------EKFTNDFVNALRNN-------K----MEEFKEKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEEH------HHHHHHHHHHHHcC-------C----HHHHHHHH
Confidence            35689999999999999999999872 1111124566643      33444444443211       1    12233334


Q ss_pred             ccCcEEEEEcccccccc---c-ccccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWERLD---L-SKTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      ++ .-+|||||++....   + +.+...+.. ...|..||+||....-.                   +++.+.++-..+
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence            33 34788999975321   1 112221211 12355688888653322                   445566666666


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      +...+.......   -+++...|++.+.|..-
T Consensus       277 l~~~~~~~~~~l---~~e~l~~ia~~~~~~~r  305 (405)
T TIGR00362       277 LQKKAEEEGLEL---PDEVLEFIAKNIRSNVR  305 (405)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHHhcCCCHH
Confidence            666654322111   14556666666666543

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).

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

Probab=97.41  E-value=8.6e-05  Score=86.46  Aligned_cols=81  Identities=23%  Similarity=0.369  Sum_probs=39.5

Q ss_pred             CCCccEEEeeccccccc-chhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccc--hhhhcccCccE
Q 038405          520 CPHLQTLLVRFTVLEIF-PHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELP--SEIMYLKNLKI  596 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l-~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP--~~i~~L~~L~~  596 (863)
                      +|.|++|.+.+-.+..- -...+.++++|+.||+|++ +++.+ ..+++|++|+.|.+++-.+..-+  ..+.+|++|++
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~T-nI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~v  224 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGT-NISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRV  224 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCC-CccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCe
Confidence            55666665555422111 1122445555666666655 55544 44555555555555554444322  23445555555


Q ss_pred             EecCCC
Q 038405          597 LLLDGM  602 (863)
Q Consensus       597 L~l~~~  602 (863)
                      ||+|..
T Consensus       225 LDIS~~  230 (699)
T KOG3665|consen  225 LDISRD  230 (699)
T ss_pred             eecccc
Confidence            555543

>PRK08116 hypothetical protein; Validated

Probab=97.41  E-value=0.00024  Score=73.46  Aligned_cols=101  Identities=24%  Similarity=0.277  Sum_probs=58.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .-+.++|..|+|||.||.++++...   .....++|++      ..+++..+........    ..+    ...+.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~~----~~~----~~~~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSSG----KED----ENEIIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhccc----ccc----HHHHHHHhc
Confidence            4588999999999999999999872   2234566665      3445555554442211    111    222334454


Q ss_pred             cCcEEEEEccccc--cccccc--ccccCCC-CCCCeEEEEeecc
Q 038405          255 RKKFVLLLDDVWE--RLDLSK--TGVSLSD-CQNGSKIVFTTRS  293 (863)
Q Consensus       255 ~k~~LlVlDdv~~--~~~~~~--~~~~l~~-~~~gs~iivTTr~  293 (863)
                      +-. ||||||+..  ..+|..  +..-+.. ...|..+||||..
T Consensus       178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            444 899999943  334432  2211111 2345679999965

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.38  E-value=0.001  Score=74.86  Aligned_cols=146  Identities=20%  Similarity=0.186  Sum_probs=81.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ..-+.|+|..|+|||+|++.+++... ....-..++|++.      ..+...+...+...       .    ...+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~----~~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTS------EKFTNDFVNALRNN-------T----MEEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHHcC-------c----HHHHHHHH
Confidence            35689999999999999999999872 1111234556643      23334444433211       1    12233344


Q ss_pred             ccCcEEEEEcccccccc---c-ccccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWERLD---L-SKTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      + +.-+|||||+.....   + +.+...+.. ...|..||+||....-.                   +++.+.++-..+
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            4 344889999964311   1 122221111 12345688888654211                   566777777777


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      +...+.......   -+++..-|++.+.|..-
T Consensus       289 l~~~~~~~~~~l---~~e~l~~ia~~~~~~~R  317 (450)
T PRK00149        289 LKKKAEEEGIDL---PDEVLEFIAKNITSNVR  317 (450)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHcCcCCCHH
Confidence            777664322111   25667777777777654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.37  E-value=0.0028  Score=67.45  Aligned_cols=85  Identities=13%  Similarity=0.102  Sum_probs=54.1

Q ss_pred             cCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh------------cccCCHHHHHHHHhHhhCccccC
Q 038405          255 RKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFN  320 (863)
Q Consensus       255 ~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~  320 (863)
                      +++-++|+|+++..  .....+...+-....++.+|+||.+....            +.+++.+++.+.+......    
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~----  180 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE----  180 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc----
Confidence            34445677999864  33344444443334567777777766433            7888999998888765311    


Q ss_pred             CCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          321 SHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       321 ~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                         ...+.+..++..++|.|+.+..+
T Consensus       181 ---~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 ---SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ---CChHHHHHHHHHcCCCHHHHHHH
Confidence               11345667889999999765544

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=0.0025  Score=71.23  Aligned_cols=98  Identities=19%  Similarity=0.266  Sum_probs=64.9

Q ss_pred             CccccchhhHHHHHHHhhc------cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          152 TEKTVGADSKLDEVWGCIE------DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       152 ~~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      +++-+|+++-+++|++++.      +.+-+++..+|++|+|||++|+.++.-.   ...|   +-++|+.-.|..+|...
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkF---fRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL---NRKF---FRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh---CCce---EEEeccccccHHhhccc
Confidence            3566899999999999883      2456899999999999999999999887   3333   23456665565554211


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      =-..            ......++-+.|+   ..+=|+.+|.|+.
T Consensus       484 RRTY------------VGAMPGkiIq~LK~v~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  484 RRTY------------VGAMPGKIIQCLKKVKTENPLILIDEVDK  516 (906)
T ss_pred             ceee------------eccCChHHHHHHHhhCCCCceEEeehhhh
Confidence            1111            1112223344443   4567899999975

>TIGR00763 lon ATP-dependent protease La

Probab=97.36  E-value=0.0062  Score=73.27  Aligned_cols=46  Identities=22%  Similarity=0.262  Sum_probs=38.0

Q ss_pred             ccccchhhHHHHHHHhhcc------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.++.+++|.+++..      ....++.++|++|+|||++|+.+++..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4577999999999887631      234589999999999999999999886

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.33  E-value=0.0001  Score=70.38  Aligned_cols=36  Identities=33%  Similarity=0.457  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEE
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIF  210 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w  210 (863)
                      +.|.|+|++|+||||||+.+++...-..-+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358999999999999999999987322356777776

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.33  E-value=0.0088  Score=67.37  Aligned_cols=101  Identities=17%  Similarity=0.180  Sum_probs=61.9

Q ss_pred             ccccchhhHHHHHHHhhc------cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIE------DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  226 (863)
                      .+-+|.++-+++|++.|.      +-.-+++.+||++|+|||+|++.++.-.   ...|   +-++++.-.|..+|-..=
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf---vR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF---VRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE---EEEecCccccHHHhcccc
Confidence            455799999999999982      1344799999999999999999999887   4444   233444444444332110


Q ss_pred             HHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc
Q 038405          227 RKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER  268 (863)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  268 (863)
                      -..+|        .=+......++ ..+.++=+++||.++..
T Consensus       397 RTYIG--------amPGrIiQ~mk-ka~~~NPv~LLDEIDKm  429 (782)
T COG0466         397 RTYIG--------AMPGKIIQGMK-KAGVKNPVFLLDEIDKM  429 (782)
T ss_pred             ccccc--------cCChHHHHHHH-HhCCcCCeEEeechhhc
Confidence            00111        01111122221 22457779999999753

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.31  E-value=0.0012  Score=73.84  Aligned_cols=46  Identities=26%  Similarity=0.436  Sum_probs=36.8

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.+..++++.+.+.-             ...+-+.++|++|.|||++|+.+++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            4466899999998887631             223458899999999999999999986

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.29  E-value=0.00095  Score=80.69  Aligned_cols=46  Identities=17%  Similarity=0.365  Sum_probs=40.2

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||+++++++++.|......-+.++|.+|+|||++|+.++.+.
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999977555566799999999999999998876

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.29  E-value=0.0025  Score=69.96  Aligned_cols=126  Identities=20%  Similarity=0.101  Sum_probs=81.3

Q ss_pred             hhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc
Q 038405          158 ADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW  237 (863)
Q Consensus       158 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  237 (863)
                      |...+.++.+.+..... ++.|.|+-++||||+++.+....   ...   .+++..-+......-+.+.           
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l~d~-----------   83 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIELLDL-----------   83 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhHHHH-----------
Confidence            44555666666655443 99999999999999997776665   222   5565543331111111111           


Q ss_pred             cccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh----------------cccC
Q 038405          238 NMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------------VECL  301 (863)
Q Consensus       238 ~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~----------------l~~L  301 (863)
                              .....+.-..++..|+||.|....+|+.....+.+.++. +|++|+-+....                +-||
T Consensus        84 --------~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~Pl  154 (398)
T COG1373          84 --------LRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPL  154 (398)
T ss_pred             --------HHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCC
Confidence                    111111111277899999999999999888777776666 888888876654                7788


Q ss_pred             CHHHHHHHH
Q 038405          302 SPEAALDLF  310 (863)
Q Consensus       302 ~~~~a~~Lf  310 (863)
                      +..|-..+-
T Consensus       155 SF~Efl~~~  163 (398)
T COG1373         155 SFREFLKLK  163 (398)
T ss_pred             CHHHHHhhc
Confidence            887776654

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.29  E-value=0.0021  Score=71.49  Aligned_cols=141  Identities=14%  Similarity=0.117  Sum_probs=76.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ..-+.|+|..|+|||+|++++++...   .....+++++      ...+...+...+...       .    ...+++.+
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~------~~~f~~~~~~~l~~~-------~----~~~f~~~~  200 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVR------SELFTEHLVSAIRSG-------E----MQRFRQFY  200 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEee------HHHHHHHHHHHHhcc-------h----HHHHHHHc
Confidence            35688999999999999999999872   1223455654      234444554444211       1    12233333


Q ss_pred             ccCcEEEEEccccccccc----ccccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHH
Q 038405          254 RRKKFVLLLDDVWERLDL----SKTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDL  309 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~~~~----~~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~L  309 (863)
                      + +.-+|++||+......    +++...+.. ...|..||+||....-.                   +.+++.++-..+
T Consensus       201 ~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~i  279 (445)
T PRK12422        201 R-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSF  279 (445)
T ss_pred             c-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHH
Confidence            3 3447888998653221    122222210 12355788888653221                   555666777777


Q ss_pred             HhHhhCccccCCCCChHHHHHHHHHHcCC
Q 038405          310 FRYKVGEDVFNSHPEIPTLAQAVVGECKG  338 (863)
Q Consensus       310 f~~~~~~~~~~~~~~~~~~~~~i~~~c~g  338 (863)
                      +.+++.......   -+++..-|++.+.|
T Consensus       280 L~~k~~~~~~~l---~~evl~~la~~~~~  305 (445)
T PRK12422        280 LERKAEALSIRI---EETALDFLIEALSS  305 (445)
T ss_pred             HHHHHHHcCCCC---CHHHHHHHHHhcCC
Confidence            766654322111   13445555555553

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.23  E-value=0.0021  Score=78.03  Aligned_cols=46  Identities=17%  Similarity=0.380  Sum_probs=40.3

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||+.++.+++..|......-+.++|.+|+|||++|+.++.+.
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999977665667799999999999999998876

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.

>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=97.20  E-value=0.00044  Score=63.39  Aligned_cols=22  Identities=36%  Similarity=0.386  Sum_probs=20.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|++|+||||+|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999987

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 ....

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.20  E-value=0.0082  Score=63.55  Aligned_cols=186  Identities=15%  Similarity=0.089  Sum_probs=100.6

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccc------------cCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDV------------NHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~------------~~~F~~~~wv~~~~~~~~  219 (863)
                      .+++|.+..++.+...+..+.+ ....++|..|+||+++|..+++...-.            ...+.-..|+.-....+-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            3578999999999999988765 789999999999999998877654111            011112233321100000


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeec
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTR  292 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr  292 (863)
                      ..+-..-++..+...........+ .++.+.+.+     .+++-++|+|+++...  ....+...+-...+. .+|++|.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id-~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~-~fILi~~  161 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLE-QIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNG-TLILIAP  161 (314)
T ss_pred             cccchhhhhhccccccccccCcHH-HHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCC-eEEEEEC
Confidence            000001111111100000011111 123344433     3567789999987542  233343333222233 4555554


Q ss_pred             chh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          293 SEE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       293 ~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      +.. +.           +.+++.++..+.+........      .......++..++|.|..+...
T Consensus       162 ~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~------~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        162 SPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI------LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             ChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc------chhHHHHHHHHcCCCHHHHHHH
Confidence            443 22           788999999998887643211      1112468899999999765543

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

Probab=97.20  E-value=0.00049  Score=80.28  Aligned_cols=123  Identities=18%  Similarity=0.191  Sum_probs=71.8

Q ss_pred             cccceEEEeccCCccc--cCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc--hhhhcccccc
Q 038405          499 WREDFRLSLWGSSIEY--LPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP--AEMGALINLR  572 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~--l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp--~~i~~L~~L~  572 (863)
                      .+.+++|.+.+-.+..  +....  +|+|++|+++++.++.+..  ++.+++|++|.+.+- .+...+  ..+.+|++|+
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~G--IS~LknLq~L~mrnL-e~e~~~~l~~LF~L~~L~  223 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSG--ISRLKNLQVLSMRNL-EFESYQDLIDLFNLKKLR  223 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHH--HhccccHHHHhccCC-CCCchhhHHHHhcccCCC
Confidence            3466777776543322  11222  7788888888887776632  677888888887765 443322  2456788888


Q ss_pred             eeeccCCCccccchh-------hhcccCccEEecCCCCCccccchhhhcCCCCCceeec
Q 038405          573 CLNLSNTSIEELPSE-------IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSL  624 (863)
Q Consensus       573 ~L~L~~~~i~~lP~~-------i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l  624 (863)
                      .||+|......-|.-       -..|++|++||.+++..-..+-...+..-++|+.+.+
T Consensus       224 vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~i~~  282 (699)
T KOG3665|consen  224 VLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQIAA  282 (699)
T ss_pred             eeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhhhhh
Confidence            888887643333211       1247778888877766433333333334445554443

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.20  E-value=0.0015  Score=70.08  Aligned_cols=126  Identities=21%  Similarity=0.167  Sum_probs=72.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      ....+.|||..|.|||.|++++.+..   .........+.++    .+......+..+..           .....+++.
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~----se~f~~~~v~a~~~-----------~~~~~Fk~~  173 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLT----SEDFTNDFVKALRD-----------NEMEKFKEK  173 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEecc----HHHHHHHHHHHHHh-----------hhHHHHHHh
Confidence            46789999999999999999999987   2333322222222    23333333333321           223444555


Q ss_pred             hccCcEEEEEcccccccc---cc-cccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHH
Q 038405          253 LRRKKFVLLLDDVWERLD---LS-KTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALD  308 (863)
Q Consensus       253 l~~k~~LlVlDdv~~~~~---~~-~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~  308 (863)
                      .  .-=++++||++-...   |+ ++...|.. ...|-.||+|++...-.                   +.+.+.+....
T Consensus       174 y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         174 Y--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             h--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHH
Confidence            4  334888999975322   22 22222221 12344899999765443                   66677777777


Q ss_pred             HHhHhhCccc
Q 038405          309 LFRYKVGEDV  318 (863)
Q Consensus       309 Lf~~~~~~~~  318 (863)
                      .+.+++....
T Consensus       252 iL~kka~~~~  261 (408)
T COG0593         252 ILRKKAEDRG  261 (408)
T ss_pred             HHHHHHHhcC
Confidence            7777654433

>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=97.17  E-value=0.00059  Score=68.09  Aligned_cols=35  Identities=29%  Similarity=0.464  Sum_probs=29.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV  213 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  213 (863)
                      .++|+|..|+|||||+..+....   .+.|..+++++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            47899999999999999998876   678888877754

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.15  E-value=0.0045  Score=70.58  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=33.7

Q ss_pred             ccccchhhHHHHHHHhh---cc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCI---ED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.+..++++.+.+   ..         ...+-+.++|++|+|||++|+.+++..
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            45778887766665544   21         123348899999999999999999876

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.13  E-value=0.0035  Score=71.06  Aligned_cols=144  Identities=16%  Similarity=0.138  Sum_probs=80.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      ..+.|+|..|+|||.|++++++... ....-..++|++.      .++..++...+..       ..    ...+++.++
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~-~~~~g~~V~Yita------eef~~el~~al~~-------~~----~~~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYAR-RLYPGTRVRYVSS------EEFTNEFINSIRD-------GK----GDSFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEeeH------HHHHHHHHHHHHh-------cc----HHHHHHHhh
Confidence            4589999999999999999999862 1111234566643      3444444433321       11    122333333


Q ss_pred             cCcEEEEEccccccc---ccc-cccccCCC-CCCCeEEEEeecchhhh-------------------cccCCHHHHHHHH
Q 038405          255 RKKFVLLLDDVWERL---DLS-KTGVSLSD-CQNGSKIVFTTRSEEVC-------------------VECLSPEAALDLF  310 (863)
Q Consensus       255 ~k~~LlVlDdv~~~~---~~~-~~~~~l~~-~~~gs~iivTTr~~~v~-------------------l~~L~~~~a~~Lf  310 (863)
                      + -=+|||||+....   .|. .+...+.. ...|..|||||+...-.                   ++..+.+.-..++
T Consensus       377 ~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        377 E-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             c-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHH
Confidence            3 3478899997531   222 22222211 13356788888864221                   5666777777777


Q ss_pred             hHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          311 RYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      .+++.......+   +++.+-|++.+.+..
T Consensus       456 ~kka~~r~l~l~---~eVi~yLa~r~~rnv  482 (617)
T PRK14086        456 RKKAVQEQLNAP---PEVLEFIASRISRNI  482 (617)
T ss_pred             HHHHHhcCCCCC---HHHHHHHHHhccCCH
Confidence            777644332221   556666666665543

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.13  E-value=0.0061  Score=72.58  Aligned_cols=46  Identities=20%  Similarity=0.214  Sum_probs=39.2

Q ss_pred             ccccchhhHHHHHHHhhcc------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.+|.++.+++|.++|..      ....++.++|++|+||||+|+.++...
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999988842      345689999999999999999999765

>PRK07261 topology modulation protein; Provisional

Probab=97.09  E-value=0.0015  Score=62.74  Aligned_cols=68  Identities=22%  Similarity=0.350  Sum_probs=42.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRR  255 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  255 (863)
                      .|.|+|++|+||||||+.+.....-..-+.|...|-..                       +...+.++....+.+.+.+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~   58 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPN-----------------------WQERDDDDMIADISNFLLK   58 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccc-----------------------cccCCHHHHHHHHHHHHhC
Confidence            48999999999999999998765111123444544211                       1122344555566666666


Q ss_pred             CcEEEEEcccccc
Q 038405          256 KKFVLLLDDVWER  268 (863)
Q Consensus       256 k~~LlVlDdv~~~  268 (863)
                      .+  .|+|+....
T Consensus        59 ~~--wIidg~~~~   69 (171)
T PRK07261         59 HD--WIIDGNYSW   69 (171)
T ss_pred             CC--EEEcCcchh
Confidence            66  577887543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.08  E-value=0.0016  Score=78.68  Aligned_cols=46  Identities=17%  Similarity=0.390  Sum_probs=40.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||+.++.++++.|......-+.++|.+|+|||++|+.++.+.
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999977666667799999999999999999876

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.07  E-value=0.0017  Score=76.50  Aligned_cols=46  Identities=17%  Similarity=0.302  Sum_probs=39.5

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||++++.++++.|......-+.++|.+|+|||++|+.++...
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999976544556789999999999999998765

>CHL00176 ftsH cell division protein; Validated

Probab=97.04  E-value=0.0047  Score=71.53  Aligned_cols=160  Identities=13%  Similarity=0.164  Sum_probs=84.6

Q ss_pred             ccccchhhHHHHHHHh---hccC---------CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGC---IEDQ---------SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~---L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.++.++++.+.   +...         ..+-|.++|++|+|||+||+.++...   ...     |+.++..    
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p-----~i~is~s----  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVP-----FFSISGS----  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC-----eeeccHH----
Confidence            4577887766665544   3321         13458999999999999999998875   222     2332211    


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc------------c----cccccccCC--CCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL------------D----LSKTGVSLS--DCQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------------~----~~~~~~~l~--~~~  282 (863)
                      ++.    ...       ...........+.......+++|++||++...            .    +..+...+.  ...
T Consensus       251 ~f~----~~~-------~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~  319 (638)
T CHL00176        251 EFV----EMF-------VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN  319 (638)
T ss_pred             HHH----HHh-------hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC
Confidence            111    000       00111122223334445678999999996421            1    111211111  123


Q ss_pred             CCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC
Q 038405          283 NGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       283 ~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      .+-.||.||......               +...+.++-.++++.++.....    ........+++.+.|.
T Consensus       320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~----~~d~~l~~lA~~t~G~  387 (638)
T CHL00176        320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL----SPDVSLELIARRTPGF  387 (638)
T ss_pred             CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc----chhHHHHHHHhcCCCC
Confidence            455666677654332               4455667777777766643221    1123456677777763

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

Probab=97.02  E-value=0.00075  Score=63.66  Aligned_cols=105  Identities=24%  Similarity=0.263  Sum_probs=67.3

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhh-cccccceeeccCCCccccch--hhhcccCccE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMG-ALINLRCLNLSNTSIEELPS--EIMYLKNLKI  596 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~-~L~~L~~L~L~~~~i~~lP~--~i~~L~~L~~  596 (863)
                      ..+...+++.+|.+..++.  |..++.|.+|.|++| .|..+-..+. -+++|..|.|.+|+|.++.+  .+..+++|++
T Consensus        41 ~d~~d~iDLtdNdl~~l~~--lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLDN--LPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             ccccceecccccchhhccc--CCCccccceEEecCC-cceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            4455667777776666554  667777777777777 5655544444 35567777787777776632  2556777888


Q ss_pred             EecCCCCCccc--cchhhhcCCCCCceeeccCc
Q 038405          597 LLLDGMRHFHL--IPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       597 L~l~~~~~l~~--lp~~~i~~L~~L~~L~l~~~  627 (863)
                      |.+-+|.....  .-.-++.++++|++|++.+.
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            87777652111  11224677888888888763

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.02  E-value=0.0016  Score=74.71  Aligned_cols=46  Identities=20%  Similarity=0.280  Sum_probs=39.4

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|-++.++++..++..     ...+++.|+|++|+||||+++.++...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999865     234679999999999999999998765

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=97.02  E-value=0.00085  Score=63.31  Aligned_cols=101  Identities=21%  Similarity=0.252  Sum_probs=83.5

Q ss_pred             cceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch--hhhcccccceeecc
Q 038405          501 EDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA--EMGALINLRCLNLS  577 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~--~i~~L~~L~~L~L~  577 (863)
                      ....+.+.+|.+..++..+ ++.|.+|.+.+|.+..+.+..-..+++|..|.|.+| .+..+-+  -+..++.|++|.+-
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~dl~pLa~~p~L~~Ltll  121 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN-SIQELGDLDPLASCPKLEYLTLL  121 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCc-chhhhhhcchhccCCccceeeec
Confidence            3446788889998888888 999999999999999998886677889999999999 7766533  25578899999999


Q ss_pred             CCCccccch----hhhcccCccEEecCCC
Q 038405          578 NTSIEELPS----EIMYLKNLKILLLDGM  602 (863)
Q Consensus       578 ~~~i~~lP~----~i~~L~~L~~L~l~~~  602 (863)
                      +|.+...+.    .+.++++|++||..+-
T Consensus       122 ~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  122 GNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             CCchhcccCceeEEEEecCcceEeehhhh
Confidence            998876543    3778999999999763

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.013  Score=60.63  Aligned_cols=184  Identities=16%  Similarity=0.229  Sum_probs=104.3

Q ss_pred             cchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHH
Q 038405          156 VGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKI  222 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~  222 (863)
                      =|.++.+++|.+...-             +..+=|.+||++|.|||-||++|+++-   ...|     +.|..+    + 
T Consensus       154 GGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~AtF-----IrvvgS----E-  220 (406)
T COG1222         154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DATF-----IRVVGS----E-  220 (406)
T ss_pred             cCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CceE-----EEeccH----H-
Confidence            3789999999887732             234557899999999999999999986   3433     443322    1 


Q ss_pred             HHHHHHHcCCCcccccccChhhHHHHHHHHhc-cCcEEEEEccccccc----------------ccccccccCCC--CCC
Q 038405          223 QEVIRKKLDISDYIWNMKGEYDRAVEILISLR-RKKFVLLLDDVWERL----------------DLSKTGVSLSD--CQN  283 (863)
Q Consensus       223 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~----------------~~~~~~~~l~~--~~~  283 (863)
                         +.+..-+        +-..+...+.+.-+ ..+..|.+|.++...                .+-++...+..  ...
T Consensus       221 ---lVqKYiG--------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         221 ---LVQKYIG--------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             ---HHHHHhc--------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence               1111111        11223334443333 468899999986410                01122222221  233


Q ss_pred             CeEEEEeecchhhh--------------cccCCHHHHH-HHHhHhhCccccCCCCChHHHHHHHHHHcCCCh----HHHH
Q 038405          284 GSKIVFTTRSEEVC--------------VECLSPEAAL-DLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP----LALI  344 (863)
Q Consensus       284 gs~iivTTr~~~v~--------------l~~L~~~~a~-~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP----Lai~  344 (863)
                      .-|||..|...++.              --+++..++. +.|+-++..-....+-++    +.+++.|.|.-    -|+.
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlkaic  365 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKAIC  365 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHHHH
Confidence            56889888777665              2235666664 577766654443333333    45666666654    4566


Q ss_pred             HHHHHHhCC--C---ChhhHHHHHHHHh
Q 038405          345 TIARAMSSR--R---SPREWQYVIDELQ  367 (863)
Q Consensus       345 ~~~~~l~~~--~---~~~~w~~~~~~l~  367 (863)
                      +=|++++-+  +   +.+.+..+.++.-
T Consensus       366 tEAGm~AiR~~R~~Vt~~DF~~Av~KV~  393 (406)
T COG1222         366 TEAGMFAIRERRDEVTMEDFLKAVEKVV  393 (406)
T ss_pred             HHHhHHHHHhccCeecHHHHHHHHHHHH
Confidence            666666432  2   3455555555443

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.95  E-value=0.02  Score=60.48  Aligned_cols=171  Identities=13%  Similarity=0.085  Sum_probs=88.1

Q ss_pred             hhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccCCCCE-----EEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          159 DSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDL-----VIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       159 ~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-----~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      +...+.+...+..+.+. .+.+.|+.|+||+++|..++....- .....+     +-|+..+..+|+..+.       ..
T Consensus        10 ~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC-~~~~~~~~c~~c~~~~~g~HPD~~~i~-------~~   81 (319)
T PRK08769         10 QRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLA-SGPDPAAAQRTRQLIAAGTHPDLQLVS-------FI   81 (319)
T ss_pred             HHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhC-CCCCCCCcchHHHHHhcCCCCCEEEEe-------cC
Confidence            34556677777666544 5889999999999999888765411 110000     0000000000100000       00


Q ss_pred             Cccccc---ccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh-----
Q 038405          233 SDYIWN---MKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       233 ~~~~~~---~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~-----  297 (863)
                      +.....   ..-..+.+..+.+.+     .+++-++|+|+++...  .-..+...+-....++.+|++|.+..-.     
T Consensus        82 p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIr  161 (319)
T PRK08769         82 PNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIR  161 (319)
T ss_pred             CCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHH
Confidence            000000   000011122222322     2466789999998642  2233333333334466777777654432     


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                             +.+++.+++.+.+... +.     +   ...+..++..++|.|+.+..+
T Consensus       162 SRCq~i~~~~~~~~~~~~~L~~~-~~-----~---~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        162 SRCQRLEFKLPPAHEALAWLLAQ-GV-----S---ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             hhheEeeCCCcCHHHHHHHHHHc-CC-----C---hHHHHHHHHHcCCCHHHHHHH
Confidence                   6778888888777643 11     1   334677899999999866543

>PRK08181 transposase; Validated

Probab=96.95  E-value=0.0009  Score=68.75  Aligned_cols=105  Identities=17%  Similarity=0.082  Sum_probs=56.8

Q ss_pred             HhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHH
Q 038405          167 GCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRA  246 (863)
Q Consensus       167 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  246 (863)
                      +|+..  ..-+.++|.+|+|||.||..+.+...   .....+.|++      ..++...+.....       ..+...  
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~------~~~L~~~l~~a~~-------~~~~~~--  160 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR------TTDLVQKLQVARR-------ELQLES--  160 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee------HHHHHHHHHHHHh-------CCcHHH--
Confidence            45542  34589999999999999999998762   2223456664      3455555543321       111122  


Q ss_pred             HHHHHHhccCcEEEEEcccccc--ccc--ccccccCCCCCCCeEEEEeecch
Q 038405          247 VEILISLRRKKFVLLLDDVWER--LDL--SKTGVSLSDCQNGSKIVFTTRSE  294 (863)
Q Consensus       247 ~~l~~~l~~k~~LlVlDdv~~~--~~~--~~~~~~l~~~~~gs~iivTTr~~  294 (863)
                        +.+.+. +.=||||||+...  ..+  ..+...+.....+..+||||...
T Consensus       161 --~l~~l~-~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        161 --AIAKLD-KFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             --HHHHHh-cCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence              222222 3459999999532  111  11222222111123588888753

>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=96.89  E-value=0.0062  Score=57.82  Aligned_cols=120  Identities=18%  Similarity=0.166  Sum_probs=67.8

Q ss_pred             chhhHHHHHHHhhccCCce-EEEEEcCCCChHHHHhhhhhhccccccC-----------------CCCEEEEEEeCCC--
Q 038405          157 GADSKLDEVWGCIEDQSEQ-TIGLYGMGGVGKITLLKKPNNKFLDVNH-----------------CFDLVIFVAVSKE--  216 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----------------~F~~~~wv~~~~~--  216 (863)
                      |-++..+.+.+.+..+... .+.++|..|+||+|+|..+++...-...                 ...-..|+.-...  
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            5566777788888776654 6899999999999999988765421111                 1112223322221  


Q ss_pred             -CCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc
Q 038405          217 -GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS  293 (863)
Q Consensus       217 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~  293 (863)
                       ..++++. ++.+.+....                  ..+++=.+|+||++..  .....+...+-....++++|++|++
T Consensus        81 ~i~i~~ir-~i~~~~~~~~------------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~  141 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSP------------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNN  141 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-
T ss_pred             hhhHHHHH-HHHHHHHHHH------------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECC
Confidence             2222222 3333322221                  1245678999999864  3444554444445578899998887


Q ss_pred             hh
Q 038405          294 EE  295 (863)
Q Consensus       294 ~~  295 (863)
                      ..
T Consensus       142 ~~  143 (162)
T PF13177_consen  142 PS  143 (162)
T ss_dssp             GG
T ss_pred             hH
Confidence            65

...

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.89  E-value=0.005  Score=65.39  Aligned_cols=105  Identities=13%  Similarity=0.122  Sum_probs=66.0

Q ss_pred             HHHHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCE-EEEEEeCCC-CCHHHHHHHHHHHcCCCcccc
Q 038405          161 KLDEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDL-VIFVAVSKE-GNLEKIQEVIRKKLDISDYIW  237 (863)
Q Consensus       161 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~  237 (863)
                      ...++++.+.. ..-.-+.|+|.+|+|||||++.+++...  ..+-+. ++|+.+.+. ..+.++.+.+...+.......
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCC
Confidence            44557777754 3335579999999999999999988762  223344 467666654 467888888877665432100


Q ss_pred             cc---cChhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          238 NM---KGEYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       238 ~~---~~~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ..   ......+..+.+++  ++++++||+|++-.
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            00   01111222333443  47999999999864

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.87  E-value=0.00015  Score=71.48  Aligned_cols=100  Identities=26%  Similarity=0.266  Sum_probs=75.4

Q ss_pred             CCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccch--hhhcccCccEEe
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPS--EIMYLKNLKILL  598 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~--~i~~L~~L~~L~  598 (863)
                      .+++.|+++||.+..+.  ++.+|+.|+||.||-| .|+.+-. +..+++|+.|.|+.|.|..+-+  -+.++++|+.|-
T Consensus        19 ~~vkKLNcwg~~L~DIs--ic~kMp~lEVLsLSvN-kIssL~p-l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LW   94 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDIS--ICEKMPLLEVLSLSVN-KISSLAP-LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLW   94 (388)
T ss_pred             HHhhhhcccCCCccHHH--HHHhcccceeEEeecc-ccccchh-HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHh
Confidence            45667777788777664  3788999999999998 7777754 7888999999999998887743  367889999998


Q ss_pred             cCCCCCccccch----hhhcCCCCCceeec
Q 038405          599 LDGMRHFHLIPA----RVFSSLLSLKVFSL  624 (863)
Q Consensus       599 l~~~~~l~~lp~----~~i~~L~~L~~L~l  624 (863)
                      |..|.....-+.    .++.-|++|+.|+=
T Consensus        95 L~ENPCc~~ag~nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   95 LDENPCCGEAGQNYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             hccCCcccccchhHHHHHHHHcccchhccC
Confidence            888875544333    34566788887763

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.84  E-value=0.019  Score=61.51  Aligned_cols=45  Identities=11%  Similarity=0.055  Sum_probs=35.4

Q ss_pred             cccc-hhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVG-ADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vG-r~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++| -+..++.+.+.+..+.+ ....++|+.|+||||+|+.+.+..
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l   52 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSL   52 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3566 67777888888876654 456899999999999999887664

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.81  E-value=0.063  Score=65.17  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=37.1

Q ss_pred             ccccchhhHHHHHHHhhcc-------C--CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------Q--SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+...+..       +  ...++.++|+.|+|||++|+.+++..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999998888887742       1  13478899999999999999998765

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.041  Score=63.95  Aligned_cols=104  Identities=20%  Similarity=0.286  Sum_probs=62.2

Q ss_pred             cccchhhHHHHHHHhhcc---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHH
Q 038405          154 KTVGADSKLDEVWGCIED---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQE  224 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  224 (863)
                      .++|-+..++.+.+.+..         ....+....|+.|||||-||+.++...-   +.=+..+-+..|+-    .-.+
T Consensus       492 rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lf---g~e~aliR~DMSEy----~EkH  564 (786)
T COG0542         492 RVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALF---GDEQALIRIDMSEY----MEKH  564 (786)
T ss_pred             ceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhc---CCCccceeechHHH----HHHH
Confidence            468999999999888832         2356778899999999999999887651   11123333333221    1122


Q ss_pred             HHHHHcCCCcccccccChhhHHHHHHHHhccCcE-EEEEcccccc
Q 038405          225 VIRKKLDISDYIWNMKGEYDRAVEILISLRRKKF-VLLLDDVWER  268 (863)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~  268 (863)
                      .+.+-+|.+.. +...+.   -..+-+.++.++| +|.||+|...
T Consensus       565 sVSrLIGaPPG-YVGyee---GG~LTEaVRr~PySViLlDEIEKA  605 (786)
T COG0542         565 SVSRLIGAPPG-YVGYEE---GGQLTEAVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHhCCCCC-Cceecc---ccchhHhhhcCCCeEEEechhhhc
Confidence            33333444321 111111   2345566778877 7778999753

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.76  E-value=0.018  Score=61.20  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=28.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV  213 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  213 (863)
                      .-+.++|..|+|||+||.++++...   ..-..++|+++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~---~~g~~V~y~t~  219 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELL---DRGKSVIYRTA  219 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH---HCCCeEEEEEH
Confidence            6799999999999999999999872   22235677754

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.74  E-value=0.0015  Score=69.09  Aligned_cols=45  Identities=18%  Similarity=0.283  Sum_probs=39.9

Q ss_pred             cccchhhHHHHHHHhhcc------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIED------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++|.++.++++++++..      ...++++++|++|+||||||+.+++..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            588999999999999954      346889999999999999999999877

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.72  E-value=0.0096  Score=62.57  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+.++|||++|.|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            345789999999999999999999987

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.02  Score=63.04  Aligned_cols=91  Identities=18%  Similarity=0.192  Sum_probs=58.2

Q ss_pred             cccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH
Q 038405          154 KTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~  221 (863)
                      ++=|.+..+.++.+++..            ...+=|.++|++|.|||.||+++++..   .-     -|+.++.+     
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel---~v-----Pf~~isAp-----  257 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL---GV-----PFLSISAP-----  257 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc---CC-----ceEeecch-----
Confidence            455899988888877732            223457899999999999999999987   22     23444433     


Q ss_pred             HHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccc
Q 038405          222 IQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  267 (863)
                         +|+....       ..+++.....+.+.-..-++++++|+++-
T Consensus       258 ---eivSGvS-------GESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 ---EIVSGVS-------GESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             ---hhhcccC-------cccHHHHHHHHHHHhccCCeEEEeecccc
Confidence               2322222       22223333333334456899999999974

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.69  E-value=0.05  Score=57.56  Aligned_cols=165  Identities=9%  Similarity=0.054  Sum_probs=87.1

Q ss_pred             HHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc---
Q 038405          161 KLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI---  236 (863)
Q Consensus       161 ~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---  236 (863)
                      ..+.+.+.+..+.+ ..+.+.|+.|+||+++|+.++....- .....       ...++.=..-+.+... ..++-.   
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC-~~~~~-------~~~Cg~C~sC~~~~~g-~HPD~~~i~   80 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMC-QTPQG-------DQPCGQCHSCHLFQAG-NHPDFHILE   80 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcC-CCCCC-------CCCCCCCHHHHHHhcC-CCCCEEEEc
Confidence            44566666666553 57789999999999999988865411 01000       0000000111111100 000000   


Q ss_pred             c---cccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh---------
Q 038405          237 W---NMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC---------  297 (863)
Q Consensus       237 ~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~---------  297 (863)
                      +   .....+ .+..+.+.+     .+++-.+|+|+++...  ....+...+-....++.+|++|.+..-.         
T Consensus        81 p~~~~~I~id-~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         81 PIDNKDIGVD-QVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             cccCCCCCHH-HHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhce
Confidence            0   001111 122233332     2566788899998643  3334444443344566777777655322         


Q ss_pred             ---cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                         +.+++.++..+.+.......        ...+...+..++|.|+.+
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~~~--------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSSAE--------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhccC--------hHHHHHHHHHcCCCHHHH
Confidence               78889999988887653211        223567788999999644

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.68  E-value=0.0058  Score=62.35  Aligned_cols=92  Identities=16%  Similarity=0.278  Sum_probs=57.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc----cccCh----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW----NMKGE----  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~----  242 (863)
                      .-+-++|+|..|+||||||+.+++..   +.+| +.++++-+++... +.++.+.+.+.-.......    .....    
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            34568999999999999999999987   3344 5667777766543 4556666554321111000    01111    


Q ss_pred             --hhHHHHHHHHh--c-cCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--R-RKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~-~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  + ++.+|+++||+-.
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence              11233455666  3 8999999999854

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.

>PRK09183 transposase/IS protein; Provisional

Probab=96.68  E-value=0.0024  Score=65.69  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+.|+|++|+|||+||..+.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999998765

>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=96.67  E-value=0.0012  Score=59.58  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=21.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|++|+||||+|+.++.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999875

...

>PRK06526 transposase; Provisional

Probab=96.66  E-value=0.0014  Score=66.96  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-+.|+|++|+|||+||..+.+..
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH
Confidence            3568999999999999999998876

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.66  E-value=0.0086  Score=59.88  Aligned_cols=48  Identities=15%  Similarity=0.183  Sum_probs=37.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQE  224 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  224 (863)
                      .-+++.|+|.+|+|||++|.+++...   ......++|++... ++...+.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHH
Confidence            35789999999999999999988765   23356889999875 66655544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK06921 hypothetical protein; Provisional

Probab=96.66  E-value=0.0019  Score=66.64  Aligned_cols=39  Identities=26%  Similarity=0.405  Sum_probs=29.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV  213 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  213 (863)
                      ...-+.++|..|+|||+||.++++...  ...-..++|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~--~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM--RKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh--hhcCceEEEEEH
Confidence            456799999999999999999999872  221345677764

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.64  E-value=0.015  Score=59.02  Aligned_cols=91  Identities=12%  Similarity=0.119  Sum_probs=56.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCC------CEEEEEEeCCCCCHHHHHHHHHHHcCCCc-------ccccc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF------DLVIFVAVSKEGNLEKIQEVIRKKLDISD-------YIWNM  239 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-------~~~~~  239 (863)
                      .-.++.|+|.+|+|||+||.+++...   ...-      ..++|++....++...+.+ +.+..+...       .....
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLVQ-LAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHHH-HHHHhccchhhhhccEEEEeC
Confidence            45799999999999999999987664   1222      5678999887777655543 333322110       00122


Q ss_pred             cChhhHHHHHHHHhc----cCcEEEEEccccc
Q 038405          240 KGEYDRAVEILISLR----RKKFVLLLDDVWE  267 (863)
Q Consensus       240 ~~~~~~~~~l~~~l~----~k~~LlVlDdv~~  267 (863)
                      .+.++....+.+..+    .+.-|+|+|.+..
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            344555555544432    3455899999853

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.64  E-value=0.036  Score=60.97  Aligned_cols=91  Identities=16%  Similarity=0.179  Sum_probs=50.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccc-cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIW-NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l  249 (863)
                      ...+|.++|.+|+||||.|..++.... .. .-..++.|+.. .+...  +-++...+..+.+.... ...++.+.+...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~-~~-~G~kV~lV~~D-~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a  175 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLK-KK-KKKKVLLVAAD-VYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAA  175 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH-Hh-cCCcEEEEEcc-ccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHH
Confidence            357999999999999998888877662 11 11234444433 33332  23444566666543211 123444555444


Q ss_pred             HHHhccCcE-EEEEcccc
Q 038405          250 LISLRRKKF-VLLLDDVW  266 (863)
Q Consensus       250 ~~~l~~k~~-LlVlDdv~  266 (863)
                      .+..+.+.| ++|+|-.-
T Consensus       176 ~~~a~~~~~DvVIIDTaG  193 (433)
T PRK10867        176 LEEAKENGYDVVIVDTAG  193 (433)
T ss_pred             HHHHHhcCCCEEEEeCCC
Confidence            444444444 66667653

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.63  E-value=0.07  Score=52.90  Aligned_cols=172  Identities=15%  Similarity=0.126  Sum_probs=97.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeC-CCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVS-KEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      ++.+++.++|.-|.|||++++.+.... .   . +.++-+.+. +......+...|...+..+.......-.++....+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~-~---~-d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~  123 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASL-N---E-DQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELA  123 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhc-C---C-CceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHH
Confidence            456799999999999999999554443 1   1 112223333 345677788888888776321101112233334444


Q ss_pred             HHh-ccCc-EEEEEcccccc--ccccccccc--CC-CCCCCeEEEEeec----c----hh-----------hhcccCCHH
Q 038405          251 ISL-RRKK-FVLLLDDVWER--LDLSKTGVS--LS-DCQNGSKIVFTTR----S----EE-----------VCVECLSPE  304 (863)
Q Consensus       251 ~~l-~~k~-~LlVlDdv~~~--~~~~~~~~~--l~-~~~~gs~iivTTr----~----~~-----------v~l~~L~~~  304 (863)
                      +.. +++| ..+++||....  ..++.++..  +- +...--+|+..-.    .    ..           +.+.|++.+
T Consensus       124 al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~  203 (269)
T COG3267         124 ALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEA  203 (269)
T ss_pred             HHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChH
Confidence            433 4677 89999998653  222222111  11 1111111222111    0    00           117899999


Q ss_pred             HHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHH
Q 038405          305 AALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIAR  348 (863)
Q Consensus       305 ~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  348 (863)
                      +...++.........+.+--..+....|.....|.|.+|..++.
T Consensus       204 ~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         204 ETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            88888877765443222223356778899999999999887654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.63  E-value=0.069  Score=59.43  Aligned_cols=87  Identities=21%  Similarity=0.214  Sum_probs=46.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ..+|+|+|.+|+||||++..++.... ..+....+..++.. .+..  .+.+....+.++....  ...+...+...+ +
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la-~~~~gkkVaLIdtD-tyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~aL-~  424 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFA-AQHAPRDVALVTTD-TQRVGGREQLHSYGRQLGIAVH--EADSAESLLDLL-E  424 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCceEEEecc-cccccHHHHHHHhhcccCceeE--ecCcHHHHHHHH-H
Confidence            47899999999999999998887652 12222345555543 2222  2223333333443321  122333333333 3


Q ss_pred             HhccCcEEEEEcccc
Q 038405          252 SLRRKKFVLLLDDVW  266 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~  266 (863)
                      .+.+ .=+|++|..-
T Consensus       425 ~l~~-~DLVLIDTaG  438 (559)
T PRK12727        425 RLRD-YKLVLIDTAG  438 (559)
T ss_pred             Hhcc-CCEEEecCCC
Confidence            3333 4578888864

>PRK12377 putative replication protein; Provisional

Probab=96.61  E-value=0.0076  Score=61.17  Aligned_cols=75  Identities=24%  Similarity=0.224  Sum_probs=46.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      ....+.++|.+|+|||+||.++++...   .....++++++.      ++...+......      .....    .+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~------~l~~~l~~~~~~------~~~~~----~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVP------DVMSRLHESYDN------GQSGE----KFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHH------HHHHHHHHHHhc------cchHH----HHHHH
Confidence            346789999999999999999999872   233345676543      444444433311      11111    22222


Q ss_pred             hccCcEEEEEccccc
Q 038405          253 LRRKKFVLLLDDVWE  267 (863)
Q Consensus       253 l~~k~~LlVlDdv~~  267 (863)
                      + .+-=||||||+..
T Consensus       161 l-~~~dLLiIDDlg~  174 (248)
T PRK12377        161 L-CKVDLLVLDEIGI  174 (248)
T ss_pred             h-cCCCEEEEcCCCC
Confidence            3 3566899999943

>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=96.60  E-value=0.0058  Score=59.90  Aligned_cols=88  Identities=22%  Similarity=0.253  Sum_probs=52.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCccccc-ccChhhHHHHHHHH
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIWN-MKGEYDRAVEILIS  252 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~-~~~~~~~~~~l~~~  252 (863)
                      +||.++|+.|+||||.+.+++.... . . -..+..++..... ...+-++..++.++.+..... ..++.+......+.
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~-~-~-~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLK-L-K-GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHH-H-T-T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHh-h-c-cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            6899999999999988888877762 2 2 3456777754332 344557778888887643211 22344444444444


Q ss_pred             hccCc-EEEEEccc
Q 038405          253 LRRKK-FVLLLDDV  265 (863)
Q Consensus       253 l~~k~-~LlVlDdv  265 (863)
                      .+.++ =++++|=.
T Consensus        79 ~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   79 FRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHTTSSEEEEEE-
T ss_pred             HhhcCCCEEEEecC
Confidence            44443 36666755

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 ....

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.60  E-value=0.00092  Score=64.48  Aligned_cols=73  Identities=22%  Similarity=0.327  Sum_probs=42.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      ..-+.++|..|+|||.||..+.+...  ... ..+.|+.      ..+++..+-..    .   .......    +.+.+
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~--~~g-~~v~f~~------~~~L~~~l~~~----~---~~~~~~~----~~~~l  106 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAI--RKG-YSVLFIT------ASDLLDELKQS----R---SDGSYEE----LLKRL  106 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHH--HTT---EEEEE------HHHHHHHHHCC----H---CCTTHCH----HHHHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhc--cCC-cceeEee------cCceecccccc----c---cccchhh----hcCcc
Confidence            35699999999999999999998763  222 2456665      34555555321    1   1112222    22334


Q ss_pred             ccCcEEEEEccccc
Q 038405          254 RRKKFVLLLDDVWE  267 (863)
Q Consensus       254 ~~k~~LlVlDdv~~  267 (863)
                      . +-=||||||+-.
T Consensus       107 ~-~~dlLilDDlG~  119 (178)
T PF01695_consen  107 K-RVDLLILDDLGY  119 (178)
T ss_dssp             H-TSSCEEEETCTS
T ss_pred             c-cccEecccccce
Confidence            3 345778999864

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.60  E-value=0.025  Score=55.17  Aligned_cols=117  Identities=21%  Similarity=0.260  Sum_probs=69.1

Q ss_pred             CCccccchhhHHHHHHH----hhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHH
Q 038405          151 ATEKTVGADSKLDEVWG----CIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       151 ~~~~~vGr~~~~~~l~~----~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  226 (863)
                      .-..++|.|...+.+++    ++..-.---|.+||.-|.|||+|++++.+.+   .+..-.  -|.|++.          
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~---~~~glr--LVEV~k~----------  122 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY---ADEGLR--LVEVDKE----------  122 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH---HhcCCe--EEEEcHH----------
Confidence            33567898887777665    3333344558899999999999999999987   333322  3333322          


Q ss_pred             HHHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEcccccc---cccccccccCC---CCCCCeEEEEeecchhhh
Q 038405          227 RKKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWER---LDLSKTGVSLS---DCQNGSKIVFTTRSEEVC  297 (863)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~---~~~~~~~~~l~---~~~~gs~iivTTr~~~v~  297 (863)
                                    +.. ....|.+.|+  .+||.|..||..=+   .....+...+.   ...+.-.++..|.++...
T Consensus       123 --------------dl~-~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHL  186 (287)
T COG2607         123 --------------DLA-TLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHL  186 (287)
T ss_pred             --------------HHh-hHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCccc
Confidence                          111 1122333343  57999999998532   23333443332   223444666677766655

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

Probab=96.59  E-value=0.0012  Score=65.07  Aligned_cols=42  Identities=19%  Similarity=0.136  Sum_probs=25.1

Q ss_pred             hhcccCccEEecCCCCCccccch---hhhcCCCCCceeeccCcch
Q 038405          588 IMYLKNLKILLLDGMRHFHLIPA---RVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       588 i~~L~~L~~L~l~~~~~l~~lp~---~~i~~L~~L~~L~l~~~~~  629 (863)
                      +-+|++|+..+|++|.+-...|+   ..|++-+.|.+|.+.+|.+
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGl  132 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGL  132 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCC
Confidence            34566677777776665444443   2355666777777766653

>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=96.57  E-value=0.0038  Score=60.92  Aligned_cols=131  Identities=15%  Similarity=0.142  Sum_probs=62.0

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC--CC----HHHH-------H
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE--GN----LEKI-------Q  223 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~----~~~~-------~  223 (863)
                      .+..+-...++.|.  ...++.+.|++|.|||.||.+.+-+. -..+.|+.++++.-.-+  .+    ...+       .
T Consensus         4 p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    4 PKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             --SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             CCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            34455556666666  45699999999999999999988766 34588888888752211  11    1111       1


Q ss_pred             HHHHHHcCCCcccccccChhhHHHH------HHHHhccC---cEEEEEcccccc--cccccccccCCCCCCCeEEEEeec
Q 038405          224 EVIRKKLDISDYIWNMKGEYDRAVE------ILISLRRK---KFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTR  292 (863)
Q Consensus       224 ~~i~~~l~~~~~~~~~~~~~~~~~~------l~~~l~~k---~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr  292 (863)
                      ..+...+..-.   .....+.....      -..+++|+   ...||+|++.+.  .++..+.   ...+.|||||++=-
T Consensus        81 ~p~~d~l~~~~---~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~il---TR~g~~skii~~GD  154 (205)
T PF02562_consen   81 RPIYDALEELF---GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMIL---TRIGEGSKIIITGD  154 (205)
T ss_dssp             HHHHHHHTTTS----TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHH---TTB-TT-EEEEEE-
T ss_pred             HHHHHHHHHHh---ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHH---cccCCCcEEEEecC
Confidence            11222221100   00111111100      01234553   569999999875  3454443   34578999999876


Q ss_pred             chhh
Q 038405          293 SEEV  296 (863)
Q Consensus       293 ~~~v  296 (863)
                      ..++
T Consensus       155 ~~Q~  158 (205)
T PF02562_consen  155 PSQI  158 (205)
T ss_dssp             ----
T ss_pred             ceee
Confidence            5444

; GO: 0005524 ATP binding; PDB: 3B85_A.

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

Probab=96.56  E-value=0.00096  Score=65.82  Aligned_cols=105  Identities=31%  Similarity=0.255  Sum_probs=66.3

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCC--cCccccchhhhcccccceeeccCCCccccc--hhhhcccCcc
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN--LDLTQLPAEMGALINLRCLNLSNTSIEELP--SEIMYLKNLK  595 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~--~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP--~~i~~L~~L~  595 (863)
                      +..|..|.+.++.+..+..  |..|++|++|+++.|  .....++.....+++|++|++++|+|+.+-  ..+..+.+|.
T Consensus        42 ~~~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   42 FVELELLSVINVGLTTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLK  119 (260)
T ss_pred             ccchhhhhhhccceeeccc--CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchh
Confidence            3445555555554444333  456778888888887  444455555566688888888888776421  1256677788


Q ss_pred             EEecCCCCCcccc--chhhhcCCCCCceeeccC
Q 038405          596 ILLLDGMRHFHLI--PARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       596 ~L~l~~~~~l~~l--p~~~i~~L~~L~~L~l~~  626 (863)
                      .|++.+|......  -..+|.-|++|.+|+-..
T Consensus       120 ~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  120 SLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             hhhcccCCccccccHHHHHHHHhhhhccccccc
Confidence            8888888643311  234466778888887654

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.54  E-value=0.061  Score=60.63  Aligned_cols=131  Identities=14%  Similarity=0.100  Sum_probs=84.0

Q ss_pred             ccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhcccc-----ccCCCCEEEEEEeCCCCCHHHHHH
Q 038405          155 TVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLD-----VNHCFDLVIFVAVSKEGNLEKIQE  224 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----~~~~F~~~~wv~~~~~~~~~~~~~  224 (863)
                      +-+|+.+..+|.+.+..     ...+.+.|.|.+|.|||..+..|.+....     .-..|+. +.|..-.-....++..
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLRLASPREIYE  476 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEcceeecCHHHHHH
Confidence            44899999999988843     33458999999999999999999885421     1234533 4455555567899999


Q ss_pred             HHHHHcCCCcccccccChhhHHHHHHHHhc-----cCcEEEEEcccccccc-cccc-cccCC-CCCCCeEEEEee
Q 038405          225 VIRKKLDISDYIWNMKGEYDRAVEILISLR-----RKKFVLLLDDVWERLD-LSKT-GVSLS-DCQNGSKIVFTT  291 (863)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~~-~~~~-~~~l~-~~~~gs~iivTT  291 (863)
                      .|.+++.....     ........+..+..     .+..++++|+++.... -+++ -..|. ...++||++|.+
T Consensus       477 ~I~~~lsg~~~-----~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  477 KIWEALSGERV-----TWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHhcccCcc-----cHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence            99999976542     23333444444443     4678888998864311 1111 11222 245678876654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.53  E-value=0.0061  Score=61.76  Aligned_cols=89  Identities=15%  Similarity=0.111  Sum_probs=52.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH----cCCCcccccccChhh---H
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK----LDISDYIWNMKGEYD---R  245 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~----l~~~~~~~~~~~~~~---~  245 (863)
                      .-.++.|+|.+|+|||++|.+++....   ..-..++|++.. .++.+.+.+ +...    +..........+..+   .
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERFKQ-IAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHHHH-HHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            357999999999999999999987762   234678999887 566555432 2222    000000001122222   2


Q ss_pred             HHHHHHHhccCcEEEEEcccc
Q 038405          246 AVEILISLRRKKFVLLLDDVW  266 (863)
Q Consensus       246 ~~~l~~~l~~k~~LlVlDdv~  266 (863)
                      ...+...++.+.-++|+|.+.
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcH
Confidence            233334444566788888874

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.48  E-value=0.0046  Score=59.54  Aligned_cols=65  Identities=17%  Similarity=0.287  Sum_probs=48.8

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~  219 (863)
                      .++||-++.++++.-.-.+.+.+-+.|.||+|+||||-+..+++...  ...+ +.+.-...|++..+
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL--G~~~ke~vLELNASdeRGI   92 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL--GDSYKEAVLELNASDERGI   92 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh--ChhhhhHhhhccCcccccc
Confidence            56899999999998888888999999999999999998888887762  2222 34444444544433

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.47  E-value=0.1  Score=57.59  Aligned_cols=89  Identities=25%  Similarity=0.197  Sum_probs=52.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC--HHHHHHHHHHHcCCCcccc-cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN--LEKIQEVIRKKLDISDYIW-NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l  249 (863)
                      ...+|.++|.+|+||||.|..++.... . ..+ .++.|+.. .+.  ..+.++.+.+.++.+.... ...+....+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~-~-~g~-kV~lV~~D-~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~a  169 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK-K-KGL-KVGLVAAD-TYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEG  169 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-H-cCC-eEEEecCC-CCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            357899999999999999999988772 2 222 44445443 222  2445666777777654211 112333333333


Q ss_pred             HHHhccCcEEEEEcccc
Q 038405          250 LISLRRKKFVLLLDDVW  266 (863)
Q Consensus       250 ~~~l~~k~~LlVlDdv~  266 (863)
                      .+.+++. =+||+|..-
T Consensus       170 l~~~~~~-DvVIIDTAG  185 (437)
T PRK00771        170 LEKFKKA-DVIIVDTAG  185 (437)
T ss_pred             HHHhhcC-CEEEEECCC
Confidence            3444444 568888763

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.46  E-value=0.046  Score=59.24  Aligned_cols=135  Identities=21%  Similarity=0.181  Sum_probs=77.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      .....+.+.|++|+|||+||..++..     ..|..+--++..+-                     ...++......+..
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~-----S~FPFvKiiSpe~m---------------------iG~sEsaKc~~i~k  589 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS-----SDFPFVKIISPEDM---------------------IGLSESAKCAHIKK  589 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh-----cCCCeEEEeChHHc---------------------cCccHHHHHHHHHH
Confidence            34566889999999999999999865     45655443321111                     12233344444444


Q ss_pred             ----HhccCcEEEEEccccccccccccccc---------------CCCCCCCeEEEEeecchhhh--------------c
Q 038405          252 ----SLRRKKFVLLLDDVWERLDLSKTGVS---------------LSDCQNGSKIVFTTRSEEVC--------------V  298 (863)
Q Consensus       252 ----~l~~k~~LlVlDdv~~~~~~~~~~~~---------------l~~~~~gs~iivTTr~~~v~--------------l  298 (863)
                          ..+..--.||+||+....+|-.++..               .|..++.--|+-||..+.|.              +
T Consensus       590 ~F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~V  669 (744)
T KOG0741|consen  590 IFEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHV  669 (744)
T ss_pred             HHHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeec
Confidence                34556779999999887776655432               12223333344566666665              3


Q ss_pred             ccCCH-HHHHHHHhHhhCccccCCCCChHHHHHHHHHHc
Q 038405          299 ECLSP-EAALDLFRYKVGEDVFNSHPEIPTLAQAVVGEC  336 (863)
Q Consensus       299 ~~L~~-~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c  336 (863)
                      ..++. ++..+.++..-    .-.+.+.+.++++.+.+|
T Consensus       670 pnl~~~~~~~~vl~~~n----~fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  670 PNLTTGEQLLEVLEELN----IFSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             CccCchHHHHHHHHHcc----CCCcchhHHHHHHHhccc
Confidence            44443 55555555432    012234456666666666

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.46  E-value=0.021  Score=59.12  Aligned_cols=57  Identities=18%  Similarity=0.193  Sum_probs=36.1

Q ss_pred             hhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHH
Q 038405          159 DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQ  223 (863)
Q Consensus       159 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  223 (863)
                      ...++++..++..+  +-|.+.|.+|+|||++|+.++...   ...   ...++.....+..+++
T Consensus         8 ~~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l---g~~---~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         8 KRVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR---DRP---VMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh---CCC---EEEEeCCccCCHHHHh
Confidence            34445555555443  356689999999999999998754   222   3455555555544443

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).

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.44  E-value=0.077  Score=56.01  Aligned_cols=154  Identities=12%  Similarity=0.056  Sum_probs=86.5

Q ss_pred             hHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc------------------CCCCEEEEEEeCCCCCHH
Q 038405          160 SKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN------------------HCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       160 ~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~wv~~~~~~~~~  220 (863)
                      ...+++.+.+..+.+ ..+.+.|+.|+||+++|+.++....-..                  .|.|. .|+.-...    
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~-~~i~p~~~----   84 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDL-HVIKPEKE----   84 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCE-EEEecCcC----
Confidence            345566666655553 4788999999999999998876541000                  11111 11111000    


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecc
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRS  293 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~  293 (863)
                                   .   .....++. ..+.+.+     .+++-.+|+|+++..  .....+...+-....++.+|++|.+
T Consensus        85 -------------~---~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~  147 (319)
T PRK06090         85 -------------G---KSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHN  147 (319)
T ss_pred             -------------C---CcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECC
Confidence                         0   00111111 2222222     245568889998764  2344444444334456777776666


Q ss_pred             hh-hh-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          294 EE-VC-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       294 ~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      .. +.           +.+++.+++.+.+... +.       +   .+..++..++|.|+.+..+
T Consensus       148 ~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~-~~-------~---~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        148 QKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQ-GI-------T---VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             hhhChHHHHhcceeEeCCCCCHHHHHHHHHHc-CC-------c---hHHHHHHHcCCCHHHHHHH
Confidence            54 32           7788889888877643 10       0   2356789999999876544

>cd01394 radB RadB

Probab=96.43  E-value=0.013  Score=59.02  Aligned_cols=43  Identities=14%  Similarity=0.144  Sum_probs=33.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN  218 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  218 (863)
                      .-+++.|.|.+|+||||+|.+++...   ...-..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH
Confidence            45789999999999999999998775   22334678887655554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK04296 thymidine kinase; Provisional

Probab=96.42  E-value=0.0027  Score=62.13  Aligned_cols=113  Identities=13%  Similarity=0.018  Sum_probs=62.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .++.|+|..|.||||+|..++.+.   ..+-..++.+.  ..++.......++.+++............+....+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~---~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY---EERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH---HHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            467899999999999999988876   22223344442  1112222233455666543321112233444444444 23


Q ss_pred             cCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh
Q 038405          255 RKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       255 ~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                      ++.-+||+|.+.--  .+..++...+  ...|..||+|.++..
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            35558999998532  1122222221  245778999988754

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.42  E-value=0.092  Score=56.15  Aligned_cols=167  Identities=11%  Similarity=0.057  Sum_probs=87.6

Q ss_pred             hHHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhcccccc-CCCC-E-----EEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          160 SKLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVN-HCFD-L-----VIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       160 ~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~-~-----~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..-+++.+.+..+. ...+.+.|+.|+||+|+|..++....-.. ..-+ +     +-++..+..+|+..+.        
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~--------   80 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLT--------   80 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEe--------
Confidence            34566777776654 45788999999999999998776541000 0000 0     0000011111110000        


Q ss_pred             CCcccccccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhh-h------
Q 038405          232 ISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEV-C------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v-~------  297 (863)
                      .... ......++ +..+.+.+     .+++-++|+|+++...  ....+...+-....++.+|++|.+..- .      
T Consensus        81 p~~~-~~~I~idq-iR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSR  158 (334)
T PRK07993         81 PEKG-KSSLGVDA-VREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSR  158 (334)
T ss_pred             cccc-cccCCHHH-HHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence            0000 00011111 22222322     3567789999987642  333444444333456677766665442 2      


Q ss_pred             -----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 -----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 -----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                           +.+++.+++.+.+....+.        ..+.+..++..++|.|..+.
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~~~~--------~~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        159 CRLHYLAPPPEQYALTWLSREVTM--------SQDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             cccccCCCCCHHHHHHHHHHccCC--------CHHHHHHHHHHcCCCHHHHH
Confidence                 7788888888877653221        13447788999999996443

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.37  E-value=0.9  Score=46.02  Aligned_cols=159  Identities=16%  Similarity=0.167  Sum_probs=90.8

Q ss_pred             cccchhhHHHHHHHhhc----------c--CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH
Q 038405          154 KTVGADSKLDEVWGCIE----------D--QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~  221 (863)
                      ++.|.+..++.+.+...          .  ...+-|.++|++|.||+.||++|+...   ..     -|++||..     
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nS-----TFFSvSSS-----  200 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NS-----TFFSVSSS-----  200 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---CC-----ceEEeehH-----
Confidence            35588888887777651          1  235679999999999999999999876   22     23455543     


Q ss_pred             HHHHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEcccccc------c---ccccccc----c---CCCCCCC
Q 038405          222 IQEVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWER------L---DLSKTGV----S---LSDCQNG  284 (863)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~------~---~~~~~~~----~---l~~~~~g  284 (863)
                         ++......        ..+.+...+.+.- .+|+-.|.+|.|+..      .   .-..|..    .   ......|
T Consensus       201 ---DLvSKWmG--------ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~g  269 (439)
T KOG0739|consen  201 ---DLVSKWMG--------ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDG  269 (439)
T ss_pred             ---HHHHHHhc--------cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCc
Confidence               22222211        2234555555544 358899999998742      1   1111111    1   1123345


Q ss_pred             eEEEEeecchhhh------------cccCCHHHHHH-HHhHhhCccccCCCCChHHHHHHHHHHcCCC
Q 038405          285 SKIVFTTRSEEVC------------VECLSPEAALD-LFRYKVGEDVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       285 s~iivTTr~~~v~------------l~~L~~~~a~~-Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      --|+-.|..+-+.            --+|++..|+. +|+-+.+...   +.-.+...++++++..|.
T Consensus       270 vLVLgATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp---~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  270 VLVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTP---HVLTEQDFKELARKTEGY  334 (439)
T ss_pred             eEEEecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCc---cccchhhHHHHHhhcCCC
Confidence            4555567666554            44677777754 6766665432   112244556666666554

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.35  E-value=0.019  Score=56.03  Aligned_cols=79  Identities=14%  Similarity=0.030  Sum_probs=45.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      .+.+|||.|.+|+||||+|+.++..+   ...+  +.-++... +-...-.....+.....-+.+...+.+-..+.|...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~---~~~~--~~~I~~D~-YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL---GVEK--VVVISLDD-YYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh---CcCc--ceEeeccc-cccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45789999999999999999999988   3231  11122111 111111111122222222223455667777888888


Q ss_pred             hccCc
Q 038405          253 LRRKK  257 (863)
Q Consensus       253 l~~k~  257 (863)
                      +++++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            88877

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.35  E-value=0.0087  Score=63.07  Aligned_cols=116  Identities=17%  Similarity=0.167  Sum_probs=67.0

Q ss_pred             chhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          157 GADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      ++........+++.+    ...+-+.|+|..|+|||.||.++++...  ...+ .+.|+++      ..++..+......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~-~v~~~~~------~~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKGV-SSTLLHF------PEFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCC-CEEEEEH------HHHHHHHHHHHhc
Confidence            455555555566643    2345689999999999999999999873  2223 3556654      3455555544321


Q ss_pred             CcccccccChhhHHHHHHHHhccCcEEEEEcccccc--ccccc--ccccC-CCC-CCCeEEEEeecc
Q 038405          233 SDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSK--TGVSL-SDC-QNGSKIVFTTRS  293 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--~~~~l-~~~-~~gs~iivTTr~  293 (863)
                             .+..+    ..+.++ +-=||||||+...  .+|..  +...+ ... ..+-.+|+||.-
T Consensus       206 -------~~~~~----~l~~l~-~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        206 -------GSVKE----KIDAVK-EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             -------CcHHH----HHHHhc-CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence                   11111    222232 4568999999643  44542  33322 211 245568888864

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.32  E-value=0.018  Score=62.15  Aligned_cols=124  Identities=15%  Similarity=0.090  Sum_probs=73.3

Q ss_pred             cccchhhHHHHHHHhhcc-CCceE-EEEEcCCCChHHHHhhhhhhccccccC------------------CCCEEEEEEe
Q 038405          154 KTVGADSKLDEVWGCIED-QSEQT-IGLYGMGGVGKITLLKKPNNKFLDVNH------------------CFDLVIFVAV  213 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~-~~~~v-i~I~G~gGiGKTtLa~~v~~~~~~~~~------------------~F~~~~wv~~  213 (863)
                      .++|-+....++..+..+ .+..- +.++|+.|+||||+|..+++.......                  ....+..+..
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~   81 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNP   81 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecc
Confidence            356777888888888863 44554 999999999999999999887621000                  1123444444


Q ss_pred             CCCCC---HHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEE
Q 038405          214 SKEGN---LEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIV  288 (863)
Q Consensus       214 ~~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~ii  288 (863)
                      +....   ..+..+++.+......                  ..++.-++++|+++...  .-..+...+......+.+|
T Consensus        82 s~~~~~~i~~~~vr~~~~~~~~~~------------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~i  143 (325)
T COG0470          82 SDLRKIDIIVEQVRELAEFLSESP------------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFI  143 (325)
T ss_pred             cccCCCcchHHHHHHHHHHhccCC------------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEE
Confidence            44433   2333333333332221                  03567889999998643  2233333333445677888


Q ss_pred             Eeecchh
Q 038405          289 FTTRSEE  295 (863)
Q Consensus       289 vTTr~~~  295 (863)
                      ++|....
T Consensus       144 l~~n~~~  150 (325)
T COG0470         144 LITNDPS  150 (325)
T ss_pred             EEcCChh
Confidence            8887443

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.31  E-value=0.018  Score=58.34  Aligned_cols=89  Identities=18%  Similarity=0.261  Sum_probs=52.1

Q ss_pred             HHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccccc
Q 038405          161 KLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWN  238 (863)
Q Consensus       161 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~  238 (863)
                      .+..+.++..+  .....+.++|.+|+|||+||.++++...   ..-..+++++      ..++...+..... .    .
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it------~~~l~~~l~~~~~-~----~  149 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIIT------VADIMSAMKDTFS-N----S  149 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEE------HHHHHHHHHHHHh-h----c
Confidence            44444444433  2345789999999999999999999872   2234566664      3455555444332 1    0


Q ss_pred             ccChhhHHHHHHHHhccCcEEEEEcccccc
Q 038405          239 MKGEYDRAVEILISLRRKKFVLLLDDVWER  268 (863)
Q Consensus       239 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  268 (863)
                      ..+.    ..+.+.+. +.=+||+||+...
T Consensus       150 ~~~~----~~~l~~l~-~~dlLvIDDig~~  174 (244)
T PRK07952        150 ETSE----EQLLNDLS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             cccH----HHHHHHhc-cCCEEEEeCCCCC
Confidence            1111    22333454 3448888999653

>PRK06696 uridine kinase; Validated

Probab=96.30  E-value=0.0049  Score=62.24  Aligned_cols=42  Identities=14%  Similarity=0.176  Sum_probs=35.0

Q ss_pred             chhhHHHHHHHhhc---cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          157 GADSKLDEVWGCIE---DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       157 Gr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|++.+++|.+.+.   .+...+|+|.|.+|+||||+|+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            36677777877774   3567899999999999999999999876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.30  E-value=0.013  Score=70.38  Aligned_cols=46  Identities=26%  Similarity=0.335  Sum_probs=36.8

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++.|.+..++++.+++.-             ...+-|.++|++|+||||||+.+++..
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            3467999999888877631             223568899999999999999999876

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.29  E-value=0.021  Score=63.99  Aligned_cols=46  Identities=22%  Similarity=0.211  Sum_probs=33.0

Q ss_pred             ccccchhhHHHHHHHhh---c----c---CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCI---E----D---QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~----~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++.|.+..++.+....   .    .   ...+-|.++|++|.|||.+|+.+++..
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            34568777666655422   1    1   234568899999999999999999886

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.28  E-value=0.14  Score=58.34  Aligned_cols=92  Identities=18%  Similarity=0.198  Sum_probs=59.6

Q ss_pred             ccccchhhHHHHHHHhhcc---------CC---ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED---------QS---EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~---------~~---~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      +++=|.++-+.+|.+-+.-         .+   ..=|.++|++|.|||-+|++|+...        ...|++|-.+    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc--------sL~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC--------SLNFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc--------eeeEEeecCH----
Confidence            4455899999999887632         22   2347899999999999999999887        2345666544    


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccc
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  267 (863)
                      ++    +..-       ...+++...+...+.=..+++.|.+|.+++
T Consensus       740 EL----LNMY-------VGqSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 EL----LNMY-------VGQSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             HH----HHHH-------hcchHHHHHHHHHHhhccCCeEEEeccccc
Confidence            12    1111       122333333333333345899999999976

>TIGR02012 tigrfam_recA protein RecA

Probab=96.27  E-value=0.012  Score=61.85  Aligned_cols=88  Identities=15%  Similarity=0.087  Sum_probs=56.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVE  248 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~  248 (863)
                      +.-+++-|+|.+|+||||||.++....   ...-..++|++.-+.++..     .+++++......   +..+.++....
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~  124 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEI  124 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence            345799999999999999999987765   2234567898776665543     345555432211   22344444544


Q ss_pred             HHHHhc-cCcEEEEEccccc
Q 038405          249 ILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       249 l~~~l~-~k~~LlVlDdv~~  267 (863)
                      +...++ +..-+||+|.|-.
T Consensus       125 ~~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       125 AETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHHhhccCCcEEEEcchhh
Confidence            544443 4567899999864

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.25  E-value=0.0087  Score=57.97  Aligned_cols=36  Identities=25%  Similarity=0.425  Sum_probs=28.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      ...+|.+.|+.|+||||+|+.++...   ...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            34689999999999999999999887   3455555555

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.25  E-value=0.025  Score=67.91  Aligned_cols=46  Identities=22%  Similarity=0.265  Sum_probs=34.9

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.+..++++.+.+.-             ...+-|.++|++|+|||++|+++++..
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~  511 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES  511 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            3466888887777765521             223458899999999999999999886

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.

>TIGR00959 ffh signal recognition particle protein

Probab=96.25  E-value=0.095  Score=57.74  Aligned_cols=91  Identities=18%  Similarity=0.183  Sum_probs=51.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccc-cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIW-NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l  249 (863)
                      ...++.++|.+|+||||.|..++.... .+.. ..++.|+.. .+..  .+-++...+..+.+.... ...++.+.+...
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~-~~~g-~kV~lV~~D-~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~a  174 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK-KKQG-KKVLLVACD-LYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRA  174 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH-HhCC-CeEEEEecc-ccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHH
Confidence            357899999999999999988887651 1111 234444443 2332  333445566666553221 123444554444


Q ss_pred             HHHhccCcE-EEEEcccc
Q 038405          250 LISLRRKKF-VLLLDDVW  266 (863)
Q Consensus       250 ~~~l~~k~~-LlVlDdv~  266 (863)
                      .+....+.| ++|+|-.-
T Consensus       175 l~~~~~~~~DvVIIDTaG  192 (428)
T TIGR00959       175 LEYAKENGFDVVIVDTAG  192 (428)
T ss_pred             HHHHHhcCCCEEEEeCCC
Confidence            444545555 77777764

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.

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

Probab=96.23  E-value=0.0014  Score=75.22  Aligned_cols=109  Identities=21%  Similarity=0.188  Sum_probs=59.7

Q ss_pred             CCCccEEEeecc-cccccc-hhhhhcCCCccEEeccCC-cCccccc----hhhhcccccceeeccCCC-cccc--chhhh
Q 038405          520 CPHLQTLLVRFT-VLEIFP-HRFFESMGALKVLDLSYN-LDLTQLP----AEMGALINLRCLNLSNTS-IEEL--PSEIM  589 (863)
Q Consensus       520 ~~~Lr~L~l~~~-~l~~l~-~~~~~~l~~L~~L~Ls~~-~~i~~lp----~~i~~L~~L~~L~L~~~~-i~~l--P~~i~  589 (863)
                      ++.|+.|.+.++ .+.... ......+++|+.|+++++ ..+...+    .....+.+|+.|+++++. ++..  ..-..
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            567777777766 333311 223556778888888762 2222222    223455777778887775 4432  11122


Q ss_pred             cccCccEEecCCCCCcccc-chhhhcCCCCCceeeccCcc
Q 038405          590 YLKNLKILLLDGMRHFHLI-PARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       590 ~L~~L~~L~l~~~~~l~~l-p~~~i~~L~~L~~L~l~~~~  628 (863)
                      .+++|++|.+.+|..+..- -..+..++++|++|++++|.
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCc
Confidence            3677777777776532211 11223466777777777654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.22  E-value=0.015  Score=70.83  Aligned_cols=46  Identities=28%  Similarity=0.376  Sum_probs=37.9

Q ss_pred             ccccchhhHHHHHHHhhccC---------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQ---------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+...+...         ...++.++|+.|+|||++|+.++...
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            45789999999999888431         24578899999999999999999765

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.

>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=96.21  E-value=0.0047  Score=57.14  Aligned_cols=42  Identities=26%  Similarity=0.301  Sum_probs=31.7

Q ss_pred             EEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHH
Q 038405          177 IGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQE  224 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  224 (863)
                      |-++|.+|+|||+||+.++...   ..   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hc---ceEEEEecccccccccee
Confidence            6789999999999999999876   11   345567788777777654

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.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.19  E-value=0.0075  Score=72.13  Aligned_cols=46  Identities=26%  Similarity=0.371  Sum_probs=36.5

Q ss_pred             ccccchhhHHHHHHHhhcc-------C--CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------Q--SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+.+.+..       .  ...++.++|+.|+|||+||+.++...
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            4467888888888887742       1  23468899999999999999998865

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.16  E-value=0.01  Score=66.68  Aligned_cols=74  Identities=20%  Similarity=0.291  Sum_probs=55.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      +.-+++.++|++|+||||||.-++++.    + | .++=|..|+..+...+-..|...+....                 
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa----G-Y-sVvEINASDeRt~~~v~~kI~~avq~~s-----------------  380 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA----G-Y-SVVEINASDERTAPMVKEKIENAVQNHS-----------------  380 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc----C-c-eEEEecccccccHHHHHHHHHHHHhhcc-----------------
Confidence            345789999999999999999998764    2 2 4677888988888888777777664432                 


Q ss_pred             Hh--ccCcEEEEEcccccc
Q 038405          252 SL--RRKKFVLLLDDVWER  268 (863)
Q Consensus       252 ~l--~~k~~LlVlDdv~~~  268 (863)
                      .+  .+++.-||+|.++..
T Consensus       381 ~l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  381 VLDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             ccccCCCcceEEEecccCC
Confidence            12  157788899988764

>PRK04132 replication factor C small subunit; Provisional

Probab=96.15  E-value=0.063  Score=63.75  Aligned_cols=141  Identities=11%  Similarity=0.058  Sum_probs=84.6

Q ss_pred             CCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEE
Q 038405          182 MGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVL  260 (863)
Q Consensus       182 ~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~Ll  260 (863)
                      +.|+||||+|..++++.-  ...+ ...+-++.++..+...+...+-+......    .             -..+.-++
T Consensus       574 Ph~lGKTT~A~ala~~l~--g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~----~-------------~~~~~KVv  634 (846)
T PRK04132        574 PTVLHNTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFARTKP----I-------------GGASFKII  634 (846)
T ss_pred             CCcccHHHHHHHHHHhhh--cccccCeEEEEeCCCcccHHHHHHHHHHHHhcCC----c-------------CCCCCEEE
Confidence            778999999999998862  1222 24566777766555544433322221110    0             01245799


Q ss_pred             EEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChH
Q 038405          261 LLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIP  326 (863)
Q Consensus       261 VlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~  326 (863)
                      |+|+++...  ....+...+-.....+++|++|.+..-.            +.+++.++-.+.+...+.......   ..
T Consensus       635 IIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i---~~  711 (846)
T PRK04132        635 FLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL---TE  711 (846)
T ss_pred             EEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC---CH
Confidence            999998653  3444444443334456676666554322            778888888877776654322211   25


Q ss_pred             HHHHHHHHHcCCChHHHH
Q 038405          327 TLAQAVVGECKGLPLALI  344 (863)
Q Consensus       327 ~~~~~i~~~c~glPLai~  344 (863)
                      +....|++.++|.+-.+.
T Consensus       712 e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        712 EGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             HHHHHHHHHcCCCHHHHH
Confidence            678899999999885443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.10  E-value=0.015  Score=61.20  Aligned_cols=87  Identities=17%  Similarity=0.082  Sum_probs=56.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|++|+||||||.+++...   ...-..++|++.-..++..     .++.++......   +..+.++....+
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45789999999999999999987665   2234568899877766653     344454432211   222444555545


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ...++ +.--+||+|.|-.
T Consensus       126 ~~li~s~~~~lIVIDSvaa  144 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVAA  144 (325)
T ss_pred             HHHHhccCCCEEEEcchHh
Confidence            44443 3567899999853

RecA couples ATP hydrolysis to DNA strand exchange.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.10  E-value=0.024  Score=57.91  Aligned_cols=93  Identities=12%  Similarity=0.116  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccC----CCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNH----CFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKG  241 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~  241 (863)
                      .-.++.|+|.+|+|||+||.+++... ....    ....++|++....++..++.+ +++..+.....       ....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~~-~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLVQ-IAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHHH-HHHHhccChHhHhcCEEEEecCC
Confidence            45789999999999999999987543 1111    136899999888777655433 33333321100       01122


Q ss_pred             hhh---HHHHHHHHhc-c-CcEEEEEccccc
Q 038405          242 EYD---RAVEILISLR-R-KKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~~---~~~~l~~~l~-~-k~~LlVlDdv~~  267 (863)
                      .++   ....+.+.+. . +.-+||+|.+..
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            222   2233444442 3 566888888753

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 .

>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=96.09  E-value=0.31  Score=52.66  Aligned_cols=198  Identities=15%  Similarity=0.155  Sum_probs=118.9

Q ss_pred             hhhHHHHHHHhhccCCceEEEEEcCCCChHHHHh-hhhhhccccccCCCCEEEEEEeCCC---CCHHHHHHHHHHHcCCC
Q 038405          158 ADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLL-KKPNNKFLDVNHCFDLVIFVAVSKE---GNLEKIQEVIRKKLDIS  233 (863)
Q Consensus       158 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~~~~~---~~~~~~~~~i~~~l~~~  233 (863)
                      |.+.+++|..||.+..-..|.|.|+-|+||+.|+ .++..+.   +    .++.+.+.+-   .+-..+...++.++|--
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r---~----~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~   73 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR---K----NVLVIDCDQIVKARGDAAFIKNLASQVGYF   73 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC---C----CEEEEEChHhhhccChHHHHHHHHHhcCCC
Confidence            5678899999999988889999999999999999 6666554   1    2666665432   23345555555555321


Q ss_pred             -----------------------cccccccChhhHHHH-------HHH-------------------Hhc---cCcEEEE
Q 038405          234 -----------------------DYIWNMKGEYDRAVE-------ILI-------------------SLR---RKKFVLL  261 (863)
Q Consensus       234 -----------------------~~~~~~~~~~~~~~~-------l~~-------------------~l~---~k~~LlV  261 (863)
                                             ...+....+.++...       |++                   +|.   .+|=+||
T Consensus        74 PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVV  153 (431)
T PF10443_consen   74 PVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVV  153 (431)
T ss_pred             cchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEE
Confidence                                   100111111111111       111                   010   1255899


Q ss_pred             Ecccccccc-----cc---cccccCCCCCCCeEEEEeecchhhh----------------cccCCHHHHHHHHhHhhCcc
Q 038405          262 LDDVWERLD-----LS---KTGVSLSDCQNGSKIVFTTRSEEVC----------------VECLSPEAALDLFRYKVGED  317 (863)
Q Consensus       262 lDdv~~~~~-----~~---~~~~~l~~~~~gs~iivTTr~~~v~----------------l~~L~~~~a~~Lf~~~~~~~  317 (863)
                      +|+.....+     |+   ++...+- ..+-.+||++|-+....                +...+++.|.++...+....
T Consensus       154 IdnF~~k~~~~~~iy~~laeWAa~Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~  232 (431)
T PF10443_consen  154 IDNFLHKAEENDFIYDKLAEWAASLV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDED  232 (431)
T ss_pred             EcchhccCcccchHHHHHHHHHHHHH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccc
Confidence            999864321     11   1112221 23456899988876654                67788999999988887543


Q ss_pred             ccC------------CC-----CChHHHHHHHHHHcCCChHHHHHHHHHHhCCCCh-hhHHHHH
Q 038405          318 VFN------------SH-----PEIPTLAQAVVGECKGLPLALITIARAMSSRRSP-REWQYVI  363 (863)
Q Consensus       318 ~~~------------~~-----~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~-~~w~~~~  363 (863)
                      ...            ..     .....-....++..||=-.-+..+++.++...++ +.-+++.
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI  296 (431)
T PF10443_consen  233 TEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEEAVEEII  296 (431)
T ss_pred             ccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            100            00     1234556678888999999999999999876443 3334443

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 [].

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.08  E-value=0.0044  Score=59.01  Aligned_cols=126  Identities=15%  Similarity=0.154  Sum_probs=72.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhcc-
Q 038405          177 IGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRR-  255 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-  255 (863)
                      +.|.|.+|+|||++|.++....      ...++|+.-.+.++.+ ..+.|...-....   ......+....+.+.+.. 
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~------~~~~~y~at~~~~d~e-m~~rI~~H~~~R~---~~w~t~E~~~~l~~~l~~~   71 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL------GGPVTYIATAEAFDDE-MAERIARHRKRRP---AHWRTIETPRDLVSALKEL   71 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc------CCCeEEEEccCcCCHH-HHHHHHHHHHhCC---CCceEeecHHHHHHHHHhc
Confidence            6799999999999999987542      2356778777777653 4444443222222   223333444455555532 


Q ss_pred             -CcEEEEEccccc--ccc---------------cccccccCCCCCCCeEEEEeecchhhhcccCCHHHHHHHHhHhhCc
Q 038405          256 -KKFVLLLDDVWE--RLD---------------LSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVGE  316 (863)
Q Consensus       256 -k~~LlVlDdv~~--~~~---------------~~~~~~~l~~~~~gs~iivTTr~~~v~l~~L~~~~a~~Lf~~~~~~  316 (863)
                       +.-.+++|.+-.  ...               +.++...+  ...+..+|+||.  +|.....+.+..-..|....+.
T Consensus        72 ~~~~~VLIDclt~~~~n~l~~~~~~~~~~~~~~i~~l~~~l--~~~~~~~viVsn--EvG~g~vp~~~~~r~f~d~lG~  146 (169)
T cd00544          72 DPGDVVLIDCLTLWVTNLLFADLEEWEAAIADEIDALLAAV--RNKPGTLILVSN--EVGLGVVPENALGRRFRDELGR  146 (169)
T ss_pred             CCCCEEEEEcHhHHHHHhCCCccccchhHHHHHHHHHHHHH--HcCCCcEEEEEC--CcCCCCCCCCHHHHHHHHHHHH
Confidence             233789998632  100               01111122  234556777764  6666667777777788776653

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.07  E-value=0.0059  Score=67.92  Aligned_cols=45  Identities=18%  Similarity=0.313  Sum_probs=39.9

Q ss_pred             cccchhhHHHHHHHhh------ccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCI------EDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L------~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++|.++.+++|++.|      .+..-+++.++|++|+||||||+.+++-.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            5789999999999998      23566899999999999999999999876

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.03  E-value=0.011  Score=71.69  Aligned_cols=46  Identities=26%  Similarity=0.336  Sum_probs=36.8

Q ss_pred             ccccchhhHHHHHHHhhcc-------C--CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------Q--SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|-+..++.+.+.+..       .  ...++.++|+.|+|||+||+.++...
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578999999999888742       1  23457789999999999999998765

>PRK09354 recA recombinase A; Provisional

Probab=96.03  E-value=0.019  Score=60.97  Aligned_cols=87  Identities=15%  Similarity=0.078  Sum_probs=57.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|++|+||||||.+++...   ...-..++|++.-..++..     .++.++......   +..+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45789999999999999999987765   2334678899888777753     345555432211   223344554444


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ...++ ++--+||+|.|-.
T Consensus       131 ~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHhhcCCCCEEEEeChhh
Confidence            44443 3566899999853

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

Probab=96.02  E-value=0.0027  Score=37.33  Aligned_cols=19  Identities=32%  Similarity=0.587  Sum_probs=9.9

Q ss_pred             cceeeccCCCccccchhhh
Q 038405          571 LRCLNLSNTSIEELPSEIM  589 (863)
Q Consensus       571 L~~L~L~~~~i~~lP~~i~  589 (863)
                      |++||+++|+|+.+|++++
T Consensus         2 L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             ESEEEETSSEESEEGTTTT
T ss_pred             ccEEECCCCcCEeCChhhc
Confidence            4555555555555555443

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

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

Probab=96.00  E-value=0.0018  Score=64.00  Aligned_cols=84  Identities=26%  Similarity=0.355  Sum_probs=57.7

Q ss_pred             hcCCCccEEeccCCcCccccchhhhcccccceeeccCC--Ccc-ccchhhhcccCccEEecCCCCC--ccccchhhhcCC
Q 038405          542 ESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT--SIE-ELPSEIMYLKNLKILLLDGMRH--FHLIPARVFSSL  616 (863)
Q Consensus       542 ~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~--~i~-~lP~~i~~L~~L~~L~l~~~~~--l~~lp~~~i~~L  616 (863)
                      -.+..|..|++.++ .++.+- .+-.|++|++|+++.|  ++. .++....++++|++|++++|+.  +.++++  +..+
T Consensus        40 d~~~~le~ls~~n~-gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p--l~~l  115 (260)
T KOG2739|consen   40 DEFVELELLSVINV-GLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP--LKEL  115 (260)
T ss_pred             ccccchhhhhhhcc-ceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch--hhhh
Confidence            34556667777666 443332 2445889999999999  444 5666667779999999999973  334444  5677


Q ss_pred             CCCceeeccCcch
Q 038405          617 LSLKVFSLFSTEL  629 (863)
Q Consensus       617 ~~L~~L~l~~~~~  629 (863)
                      .+|..|++++|..
T Consensus       116 ~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen  116 ENLKSLDLFNCSV  128 (260)
T ss_pred             cchhhhhcccCCc
Confidence            8888888887653

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.99  E-value=0.0066  Score=55.34  Aligned_cols=24  Identities=42%  Similarity=0.472  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-|+|.|++|+||||+++.+.+..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            458999999999999999999887

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.99  E-value=0.014  Score=55.65  Aligned_cols=40  Identities=25%  Similarity=0.273  Sum_probs=31.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN  218 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  218 (863)
                      ++.|+|.+|+||||++..+....   ...-..++|+.......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcchH
Confidence            46899999999999999998876   22345678887766543

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.99  E-value=0.012  Score=71.15  Aligned_cols=46  Identities=24%  Similarity=0.306  Sum_probs=37.3

Q ss_pred             ccccchhhHHHHHHHhhcc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+.+.+..         ....++.++|+.|+|||.||+.++...
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999888732         234578999999999999999887765

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=95.96  E-value=0.21  Score=53.33  Aligned_cols=81  Identities=20%  Similarity=0.256  Sum_probs=50.7

Q ss_pred             cCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh-hh-----------cccCCHHHHHHHHhHhhCccccC
Q 038405          255 RKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE-VC-----------VECLSPEAALDLFRYKVGEDVFN  320 (863)
Q Consensus       255 ~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~-v~-----------l~~L~~~~a~~Lf~~~~~~~~~~  320 (863)
                      +++-++|+|+++..  .....+...+-...+++.+|++|.+.+ +.           +.+++.++..+.+... +.    
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~~----  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-GV----  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-CC----
Confidence            45668889999864  334444444444455676666666544 32           7888999998888764 11    


Q ss_pred             CCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          321 SHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       321 ~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                        ++    ...++..++|.|..+..+
T Consensus       206 --~~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 --AD----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             --Ch----HHHHHHHcCCCHHHHHHH
Confidence              11    223577889999755543

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.95  E-value=0.024  Score=58.07  Aligned_cols=75  Identities=24%  Similarity=0.302  Sum_probs=47.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      +..-+.++|.+|+|||.||.++.++..   ..-..+.|++      ..++..++......          .....++.+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~---~~g~sv~f~~------~~el~~~Lk~~~~~----------~~~~~~l~~~  164 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL---KAGISVLFIT------APDLLSKLKAAFDE----------GRLEEKLLRE  164 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhc----------CchHHHHHHH
Confidence            556789999999999999999999982   2223556664      45566666555432          1112222222


Q ss_pred             hccCcEEEEEccccc
Q 038405          253 LRRKKFVLLLDDVWE  267 (863)
Q Consensus       253 l~~k~~LlVlDdv~~  267 (863)
                      ++ +-=||||||+-.
T Consensus       165 l~-~~dlLIiDDlG~  178 (254)
T COG1484         165 LK-KVDLLIIDDIGY  178 (254)
T ss_pred             hh-cCCEEEEecccC
Confidence            22 334899999854

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.92  E-value=0.032  Score=59.92  Aligned_cols=88  Identities=20%  Similarity=0.225  Sum_probs=51.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      -.+++++|+.|+||||++..++.... .+.....+.+++.... ....+-++...+.++.+..  ...+..+....+ ..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~-~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l-~~  212 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCV-MRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLAL-AE  212 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHH-HH
Confidence            46899999999999999999988751 1111234556653321 2334455666667776542  122333333333 33


Q ss_pred             hccCcEEEEEcccc
Q 038405          253 LRRKKFVLLLDDVW  266 (863)
Q Consensus       253 l~~k~~LlVlDdv~  266 (863)
                      +.++ -++++|..-
T Consensus       213 l~~~-DlVLIDTaG  225 (374)
T PRK14722        213 LRNK-HMVLIDTIG  225 (374)
T ss_pred             hcCC-CEEEEcCCC
Confidence            4454 456688874

>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=95.89  E-value=0.026  Score=54.46  Aligned_cols=23  Identities=39%  Similarity=0.395  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++.++|++|+||||+++.++...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998876

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.

>PRK06547 hypothetical protein; Provisional

Probab=95.89  E-value=0.0097  Score=56.98  Aligned_cols=35  Identities=20%  Similarity=0.127  Sum_probs=28.4

Q ss_pred             HHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          164 EVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       164 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+...+......+|+|.|.+|+||||+|+.+....
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444556678899999999999999999998765

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

Probab=95.88  E-value=0.0022  Score=73.55  Aligned_cols=87  Identities=28%  Similarity=0.152  Sum_probs=49.8

Q ss_pred             hhcCCCccEEeccCCcCccc--cchhhhcccccceeeccCC--Ccccc----chhhhcccCccEEecCCCCCccccchhh
Q 038405          541 FESMGALKVLDLSYNLDLTQ--LPAEMGALINLRCLNLSNT--SIEEL----PSEIMYLKNLKILLLDGMRHFHLIPARV  612 (863)
Q Consensus       541 ~~~l~~L~~L~Ls~~~~i~~--lp~~i~~L~~L~~L~L~~~--~i~~l----P~~i~~L~~L~~L~l~~~~~l~~lp~~~  612 (863)
                      ...++.|+.|.+.++..+..  +-.....+++|+.|+++++  .+...    +.....+++|+.|++++|..+...--..
T Consensus       184 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~  263 (482)
T KOG1947|consen  184 LSSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSA  263 (482)
T ss_pred             HhhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHH
Confidence            34467788888887765554  3344567788888888763  22211    1233456777777777776333222111


Q ss_pred             hc-CCCCCceeeccCc
Q 038405          613 FS-SLLSLKVFSLFST  627 (863)
Q Consensus       613 i~-~L~~L~~L~l~~~  627 (863)
                      +. .+++|++|.+.+|
T Consensus       264 l~~~c~~L~~L~l~~c  279 (482)
T KOG1947|consen  264 LASRCPNLETLSLSNC  279 (482)
T ss_pred             HHhhCCCcceEccCCC
Confidence            22 3667777765543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=95.86  E-value=0.042  Score=61.23  Aligned_cols=177  Identities=14%  Similarity=0.152  Sum_probs=98.6

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH--
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK--  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~--  229 (863)
                      +++||-+.....|.+.+..+.. ......|+-|+||||+|+-++...- -...       ....+++.-...+.|...  
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalN-C~~~-------~~~ePC~~C~~Ck~I~~g~~   87 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALN-CENG-------PTAEPCGKCISCKEINEGSL   87 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhc-CCCC-------CCCCcchhhhhhHhhhcCCc
Confidence            4679999999999999976543 4567899999999999998876541 1110       111122222222333222  


Q ss_pred             cCCCcccccccChhhHHHHHHHHh-----ccCcEEEEEccccc--ccccccccccCCCCCCCeEEEEeec-chhhh----
Q 038405          230 LDISDYIWNMKGEYDRAVEILISL-----RRKKFVLLLDDVWE--RLDLSKTGVSLSDCQNGSKIVFTTR-SEEVC----  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~--~~~~~~~~~~l~~~~~gs~iivTTr-~~~v~----  297 (863)
                      +.+-.-+-...+..+-.+.|.+..     +++.=..|+|.|.-  ...|..+..-+-.....-+.|+.|+ -..+.    
T Consensus        88 ~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIl  167 (515)
T COG2812          88 IDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTIL  167 (515)
T ss_pred             ccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhh
Confidence            000000000111122223333333     35666889999974  3456555554433333445444444 44443    


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                             ++.++.++-...+...+.......+   .+...-|++..+|..
T Consensus       168 SRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e---~~aL~~ia~~a~Gs~  214 (515)
T COG2812         168 SRCQRFDFKRLDLEEIAKHLAAILDKEGINIE---EDALSLIARAAEGSL  214 (515)
T ss_pred             hccccccccCCCHHHHHHHHHHHHHhcCCccC---HHHHHHHHHHcCCCh
Confidence                   7888999888888887765543322   456666777776654

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.85  E-value=0.012  Score=54.38  Aligned_cols=43  Identities=21%  Similarity=0.276  Sum_probs=32.6

Q ss_pred             cchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          156 VGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||....++++.+.+..  .....|.|+|-.|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            5777777777777744  445667899999999999999998876

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.85  E-value=0.0036  Score=59.82  Aligned_cols=129  Identities=17%  Similarity=0.141  Sum_probs=66.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccc-cChhhHHHHHHHHh
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNM-KGEYDRAVEILISL  253 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~~~l~~~l  253 (863)
                      .+|.|.|.+|+||||+|..+....   ..   .++++.-...++ .+..+.|..........|.. ....++...+....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~---~~---~~~~iat~~~~~-~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~   74 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS---GL---QVLYIATAQPFD-DEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADA   74 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc---CC---CcEeCcCCCCCh-HHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhc
Confidence            368999999999999999998764   11   234444444433 34555554443322222211 12223444443333


Q ss_pred             ccCcEEEEEcccccc----------cccc----cccccCCCCCCCeEEEEeecchhhhcccCCHHHHHHHHhHhhC
Q 038405          254 RRKKFVLLLDDVWER----------LDLS----KTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFRYKVG  315 (863)
Q Consensus       254 ~~k~~LlVlDdv~~~----------~~~~----~~~~~l~~~~~gs~iivTTr~~~v~l~~L~~~~a~~Lf~~~~~  315 (863)
                      .+ .-++++|.+-.-          ..|.    .+...+  ...+..+|+||.  ++.....+.+..-..|....+
T Consensus        75 ~~-~~~VlID~Lt~~~~n~l~~~~~~~~~~~l~~li~~L--~~~~~tvVlVs~--Evg~g~vp~~~~~r~~~d~lG  145 (170)
T PRK05800         75 AP-GRCVLVDCLTTWVTNLLFEEGEEAIAAEIDALLAAL--QQLPAKIILVTN--EVGMGIVPEYRLGRHFRDIAG  145 (170)
T ss_pred             CC-CCEEEehhHHHHHHHHhcccchHHHHHHHHHHHHHH--HcCCCCEEEEEc--CCcccccCCCHHHHHHHHHHH
Confidence            32 337888986321          1111    121222  234556777764  333444555566666766554

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.82  E-value=0.21  Score=54.81  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.++|..|+||||+|..++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999888766

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.81  E-value=0.04  Score=54.27  Aligned_cols=23  Identities=39%  Similarity=0.569  Sum_probs=21.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||+|.|.+|+||||+|+.+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999999887

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 ....

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.80  E-value=0.15  Score=50.37  Aligned_cols=160  Identities=16%  Similarity=0.260  Sum_probs=87.0

Q ss_pred             ccccchhhHHHH---HHHhhccC------CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHH
Q 038405          153 EKTVGADSKLDE---VWGCIEDQ------SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQ  223 (863)
Q Consensus       153 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  223 (863)
                      ++.||.++.+.+   |++.|.++      ..+-|..+|++|.|||-+|+++++..   +-.|     +.+.       ..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~---kvp~-----l~vk-------at  185 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA---KVPL-----LLVK-------AT  185 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc---CCce-----EEec-------hH
Confidence            457898876654   56677552      35779999999999999999999987   2222     1111       11


Q ss_pred             HHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEcccccc----------ccccccccc----CC--CCCCCeE
Q 038405          224 EVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWER----------LDLSKTGVS----LS--DCQNGSK  286 (863)
Q Consensus       224 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~----------~~~~~~~~~----l~--~~~~gs~  286 (863)
                      +-|.+..|         +....+.++.++- +.-++.+.+|.++..          .+..++..+    +.  ..+.|-.
T Consensus       186 ~liGehVG---------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         186 ELIGEHVG---------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             HHHHHHhh---------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence            11222211         1222333333333 246899999987642          111122111    11  2345666


Q ss_pred             EEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          287 IVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       287 iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      -|-.|.+.+..             ..--+++|-.+++...+..-..    .+..-.+.++++.+|+.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Pl----pv~~~~~~~~~~t~g~S  319 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPL----PVDADLRYLAAKTKGMS  319 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCC----ccccCHHHHHHHhCCCC
Confidence            66667666554             2334566667777766532211    11223555666666643

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.79  E-value=0.032  Score=57.37  Aligned_cols=93  Identities=13%  Similarity=0.109  Sum_probs=55.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccc-c--ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccChh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFL-D--VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGEY  243 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~-~--~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~~  243 (863)
                      -.+.=|+|.+|+|||.|+.+++-... .  ..+.=..++|++-...|...++. +|++..+.....       ....+.+
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            46889999999999999987764320 0  11223579999988889888775 466665443211       0122333


Q ss_pred             hHHHH---HHHHh-ccCcEEEEEccccc
Q 038405          244 DRAVE---ILISL-RRKKFVLLLDDVWE  267 (863)
Q Consensus       244 ~~~~~---l~~~l-~~k~~LlVlDdv~~  267 (863)
                      ++...   +...+ .++--|||+|.+-.
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIaa  144 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIAA  144 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHhhccccceEEEEecchHH
Confidence            33332   22333 24555888898743

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 ....

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=95.79  E-value=0.033  Score=52.01  Aligned_cols=117  Identities=17%  Similarity=0.116  Sum_probs=61.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC---CCHHHHHHHHH--H--HcCCCcccccccChhh---
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE---GNLEKIQEVIR--K--KLDISDYIWNMKGEYD---  244 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~---~~~~~~~~~i~--~--~l~~~~~~~~~~~~~~---  244 (863)
                      ..|-|++-.|.||||+|...+-+.   ..+=..+.++.+-+.   ..-..+++.+-  .  +.+.. ..+...+..+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra---~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~-~~~~~~~~~~~~~   78 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRA---LGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRG-FFWTTENDEEDIA   78 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCC-CccCCCChHHHHH
Confidence            467888888999999999887765   223234555554443   23333333330  0  00100 0000111111   


Q ss_pred             ----HHHHHHHHhcc-CcEEEEEcccccc-----cccccccccCCCCCCCeEEEEeecchh
Q 038405          245 ----RAVEILISLRR-KKFVLLLDDVWER-----LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       245 ----~~~~l~~~l~~-k~~LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                          .....++.+.. +-=|+|||++-..     .+.+++...+.....+..||+|.|+..
T Consensus        79 ~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          79 AAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                11223333433 4569999998643     223334444444455778999999854

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.79  E-value=0.085  Score=54.24  Aligned_cols=138  Identities=17%  Similarity=0.195  Sum_probs=78.9

Q ss_pred             cccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH-HHHHHHH
Q 038405          154 KTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK-IQEVIRK  228 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~-~~~~i~~  228 (863)
                      .++|-.++..++-.++..    ++..-+.|+|+.|.|||+|...+..+..+...+   .+-|......-.++ .++.|..
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~---~l~v~Lng~~~~dk~al~~I~r  101 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGEN---FLLVRLNGELQTDKIALKGITR  101 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCe---EEEEEECccchhhHHHHHHHHH
Confidence            478998888888888854    555678899999999999988777664222333   34444444433222 3444544


Q ss_pred             HcCCCcc--cccccChhhHHHHHHHHhcc------CcEEEEEcccccccc------ccc-ccccCCCCCCCeEEEEeecc
Q 038405          229 KLDISDY--IWNMKGEYDRAVEILISLRR------KKFVLLLDDVWERLD------LSK-TGVSLSDCQNGSKIVFTTRS  293 (863)
Q Consensus       229 ~l~~~~~--~~~~~~~~~~~~~l~~~l~~------k~~LlVlDdv~~~~~------~~~-~~~~l~~~~~gs~iivTTr~  293 (863)
                      ++.....  .....+..+...++.+.|+.      -++..|+|.++-...      +-. +...-....+-|-|-+|||-
T Consensus       102 ql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  102 QLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            4432211  01233445556666666653      268888888764211      000 00111123456777799986


Q ss_pred             h
Q 038405          294 E  294 (863)
Q Consensus       294 ~  294 (863)
                      .
T Consensus       182 d  182 (408)
T KOG2228|consen  182 D  182 (408)
T ss_pred             c
Confidence            4

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

Probab=95.77  E-value=0.014  Score=57.80  Aligned_cols=88  Identities=18%  Similarity=0.187  Sum_probs=57.2

Q ss_pred             CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCc---Cccccch-------hhhcccccceeeccCCCcc-cc
Q 038405          520 CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNL---DLTQLPA-------EMGALINLRCLNLSNTSIE-EL  584 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~---~i~~lp~-------~i~~L~~L~~L~L~~~~i~-~l  584 (863)
                      +..+..++|++|.+..-.    ...+.+-++|++-+++.-.   ...++|+       .+-+|++|+..+||.|.+. +.
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            556777888888553221    1224556788888887641   1123333       3457899999999999654 33


Q ss_pred             ch----hhhcccCccEEecCCCCCcccc
Q 038405          585 PS----EIMYLKNLKILLLDGMRHFHLI  608 (863)
Q Consensus       585 P~----~i~~L~~L~~L~l~~~~~l~~l  608 (863)
                      |+    -|+.-+.|.||.+++|. +..+
T Consensus       109 ~e~L~d~is~~t~l~HL~l~NnG-lGp~  135 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNNG-LGPI  135 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecCC-CCcc
Confidence            43    35677889999999886 4443

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.24  Score=53.30  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      =-.++|++|.|||+++.++++..
T Consensus       237 GYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743|consen  237 GYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             cceeeCCCCCCHHHHHHHHHhhc
Confidence            35689999999999999999987

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.74  E-value=0.013  Score=57.86  Aligned_cols=107  Identities=17%  Similarity=0.131  Sum_probs=56.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .+|.|+|+.|+||||++..+....   .......++. +.++.  +...... ..+ ..... ...+.......++..++
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t-~e~~~--E~~~~~~-~~~-i~q~~-vg~~~~~~~~~i~~aLr   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILT-IEDPI--EFVHESK-RSL-INQRE-VGLDTLSFENALKAALR   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEE-EcCCc--cccccCc-cce-eeecc-cCCCccCHHHHHHHHhc
Confidence            478999999999999999887765   2222333332 22221  1000000 000 00000 01122345566777777


Q ss_pred             cCcEEEEEcccccccccccccccCCCCCCCeEEEEeecc
Q 038405          255 RKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRS  293 (863)
Q Consensus       255 ~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~  293 (863)
                      ...=.|++|++.+...+.......   ..|-.++.|+-.
T Consensus        73 ~~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha  108 (198)
T cd01131          73 QDPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHT  108 (198)
T ss_pred             CCcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecC
Confidence            777799999997765444332221   234456666643

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.74  E-value=0.059  Score=54.93  Aligned_cols=48  Identities=17%  Similarity=0.096  Sum_probs=35.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      .-.++.|.|.+|+|||++|.++....   -..-..++|++...+  ..++.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee~--~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEEH--PVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeCC--HHHHHHH
Confidence            45789999999999999999876654   123457888887653  4455554

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.

>PTZ00301 uridine kinase; Provisional

Probab=95.69  E-value=0.014  Score=57.71  Aligned_cols=25  Identities=28%  Similarity=0.428  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|||.|.+|+||||||+.+....
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999988765

>PRK07667 uridine kinase; Provisional

Probab=95.68  E-value=0.018  Score=56.57  Aligned_cols=37  Identities=16%  Similarity=0.386  Sum_probs=29.0

Q ss_pred             HHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          162 LDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       162 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.|.+.+..  ....+|||.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555533  445799999999999999999998876

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.66  E-value=0.33  Score=52.13  Aligned_cols=59  Identities=12%  Similarity=0.146  Sum_probs=39.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC--HHHHHHHHHHHcCCCcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN--LEKIQEVIRKKLDISDY  235 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~  235 (863)
                      ...||-.+|.-|.||||-|-.+++.+.   . ....+-+...+.+.  ..+-++.+.++.+.+..
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lk---k-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f  159 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLK---K-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFF  159 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHH---H-cCCceEEEecccCChHHHHHHHHHHHHcCCcee
Confidence            347899999999999999999888873   2 22233333334443  33456778888876653

>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=95.66  E-value=0.0071  Score=54.98  Aligned_cols=22  Identities=36%  Similarity=0.687  Sum_probs=20.1

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |+|.|+.|+||||+|+.+....
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            7899999999999999998873

...

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.65  E-value=0.044  Score=57.29  Aligned_cols=88  Identities=23%  Similarity=0.259  Sum_probs=47.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ..++|+|+|++|+||||++..++.... .+..-..+..++..... ...+.+....+.++.+..  ...+..++...+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~-~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l~-  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFV-LEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKALD-  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHHH-
Confidence            347999999999999999999887762 22111345666644321 122233334444554431  1233334433333 


Q ss_pred             HhccCcEEEEEccc
Q 038405          252 SLRRKKFVLLLDDV  265 (863)
Q Consensus       252 ~l~~k~~LlVlDdv  265 (863)
                      .+.+ .=+|++|..
T Consensus       269 ~~~~-~d~vliDt~  281 (282)
T TIGR03499       269 RLRD-KDLILIDTA  281 (282)
T ss_pred             HccC-CCEEEEeCC
Confidence            3333 346677753

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.64  E-value=0.014  Score=69.06  Aligned_cols=46  Identities=17%  Similarity=0.240  Sum_probs=37.2

Q ss_pred             ccccchhhHHHHHHHhhcc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|-++.++.+.+.+..         .....+.++|+.|+|||++|+.++...
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            3468999999888888742         124578899999999999999998876

>PHA00729 NTP-binding motif containing protein

Probab=95.63  E-value=0.013  Score=58.04  Aligned_cols=35  Identities=17%  Similarity=0.251  Sum_probs=28.4

Q ss_pred             HHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          164 EVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       164 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++.+...+...|.|+|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555555666779999999999999999998874

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.63  E-value=0.07  Score=59.04  Aligned_cols=141  Identities=16%  Similarity=0.232  Sum_probs=77.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .=|.+||++|.|||-||++|+|..   +..|     ++|..+    +++.    ..       ...++......+++.=.
T Consensus       546 sGvLL~GPPGCGKTLlAKAVANEa---g~NF-----isVKGP----ELlN----kY-------VGESErAVR~vFqRAR~  602 (802)
T KOG0733|consen  546 SGVLLCGPPGCGKTLLAKAVANEA---GANF-----ISVKGP----ELLN----KY-------VGESERAVRQVFQRARA  602 (802)
T ss_pred             CceEEeCCCCccHHHHHHHHhhhc---cCce-----EeecCH----HHHH----HH-------hhhHHHHHHHHHHHhhc
Confidence            347799999999999999999987   4444     444333    2221    11       11222222223333334


Q ss_pred             cCcEEEEEcccccc-------cc------cccccccCC--CCCCCeEEEEeecchhhh---------------cccCCHH
Q 038405          255 RKKFVLLLDDVWER-------LD------LSKTGVSLS--DCQNGSKIVFTTRSEEVC---------------VECLSPE  304 (863)
Q Consensus       255 ~k~~LlVlDdv~~~-------~~------~~~~~~~l~--~~~~gs~iivTTr~~~v~---------------l~~L~~~  304 (863)
                      .-++.|.+|.++..       ..      ...+..-+.  ....|--||-.|..+++.               +..-+.+
T Consensus       603 saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~  682 (802)
T KOG0733|consen  603 SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAE  682 (802)
T ss_pred             CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHH
Confidence            57999999999742       11      111111121  123455667666666554               4555677


Q ss_pred             HHHHHHhHhhCc--cccCCCCChHHHHHHHHHHcCCCh
Q 038405          305 AALDLFRYKVGE--DVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       305 ~a~~Lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      |-.++++.....  .....+-+++++++.  .+|.|.-
T Consensus       683 eR~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  683 ERVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             HHHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            888888877653  222233344554433  3555554

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=95.61  E-value=0.018  Score=59.65  Aligned_cols=39  Identities=18%  Similarity=0.209  Sum_probs=32.1

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhh
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~  195 (863)
                      +|..+-.--.++|.++++..|.+.|.+|.|||-||-+..
T Consensus       228 prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         228 PRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             cccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHH
Confidence            456666667788899999999999999999998876543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.60  E-value=0.024  Score=63.53  Aligned_cols=73  Identities=27%  Similarity=0.284  Sum_probs=48.9

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC--CCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE--GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ..-|.|.|..|+|||+||+++++...  +...-.+.+|+.+.-  ...+++++.+..                   .+.+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~-------------------vfse  489 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIVSCSTLDGSSLEKIQKFLNN-------------------VFSE  489 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEEechhccchhHHHHHHHHHH-------------------HHHH
Confidence            34688999999999999999999883  444445566665533  223333333322                   2234


Q ss_pred             HhccCcEEEEEccccc
Q 038405          252 SLRRKKFVLLLDDVWE  267 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~~  267 (863)
                      .+...+-+|||||++.
T Consensus       490 ~~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  490 ALWYAPSIIVLDDLDC  505 (952)
T ss_pred             HHhhCCcEEEEcchhh
Confidence            5567889999999964

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.60  E-value=0.027  Score=51.47  Aligned_cols=45  Identities=20%  Similarity=0.288  Sum_probs=35.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISD  234 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  234 (863)
                      +|.|-|.+|+||||+|+.++++.   .-.|     +      +...+++++++..+++-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~---gl~~-----v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL---GLKL-----V------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh---CCce-----e------eccHHHHHHHHHcCCCH
Confidence            68999999999999999999887   1111     1      34578899999888764

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.59  E-value=0.041  Score=59.96  Aligned_cols=90  Identities=21%  Similarity=0.268  Sum_probs=54.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc----cccCh-----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW----NMKGE-----  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~-----  242 (863)
                      .-..++|+|..|+|||||++.++...     ..+.++++-+++... +.++.+.++..-+......    .+...     
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLK  235 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHH
Confidence            44679999999999999999998654     225666676766543 4555555544322211100    01111     


Q ss_pred             -hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 -YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 -~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ...+..+.+++  +++++|+++||+-.
T Consensus       236 a~~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        236 GCETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEcChHH
Confidence             11223455665  57999999999854

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.59  E-value=0.042  Score=58.09  Aligned_cols=94  Identities=11%  Similarity=0.052  Sum_probs=57.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc-------cccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW-------NMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  242 (863)
                      .-+++-|+|.+|+|||+|+.+++-...-.   ...=..++|++.-..|+.+++.+ +++.++......       ...+.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~  173 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTS  173 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCH
Confidence            45788999999999999998866432000   11224789999998888888754 566665542110       11123


Q ss_pred             hhHH---HHHHHHhc-cCcEEEEEccccc
Q 038405          243 YDRA---VEILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~---~~l~~~l~-~k~~LlVlDdv~~  267 (863)
                      ++..   ..+...+. ++--|||+|.+-.
T Consensus       174 e~~~~~l~~l~~~i~~~~~~LvVIDSisa  202 (313)
T TIGR02238       174 EHQMELLDYLAAKFSEEPFRLLIVDSIMA  202 (313)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEEcchH
Confidence            3332   23333332 3455788888753

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.

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.57  E-value=0.11  Score=59.93  Aligned_cols=164  Identities=15%  Similarity=0.170  Sum_probs=89.0

Q ss_pred             ccccchhhHH---HHHHHhhccC---------CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKL---DEVWGCIEDQ---------SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~---~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .++.|-|+.+   ++++++|.++         -.+=+.++|++|.|||-||++++-.. .       +-|++++..    
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-g-------VPF~svSGS----  378 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-G-------VPFFSVSGS----  378 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-C-------CceeeechH----
Confidence            3466877655   4555566542         12347899999999999999999876 2       234455433    


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEcccccccc-----------------cccccccCCCCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWERLD-----------------LSKTGVSLSDCQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-----------------~~~~~~~l~~~~  282 (863)
                          +..+.+....        ..+...+...- +..++.|.+|+++....                 +..+...+....
T Consensus       379 ----EFvE~~~g~~--------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  379 ----EFVEMFVGVG--------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             ----HHHHHhcccc--------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence                1222221110        11222222222 24677888888764211                 111111111112


Q ss_pred             CCe-EE-EEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          283 NGS-KI-VFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       283 ~gs-~i-ivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                      .++ .| +-+|+..++.               ++.-+.....++|..++.....  ..+..++++ |+...-|.+=|.
T Consensus       447 ~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~--~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  447 TSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKL--DDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCC--CcchhhHHH-HHhcCCCCcHHH
Confidence            222 33 3455555554               4445566777888888765432  234466777 888888887543

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.57  E-value=0.035  Score=60.14  Aligned_cols=87  Identities=23%  Similarity=0.264  Sum_probs=50.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      -.++.|.|.+|+|||||+.+++....   ..-..++|++..+.  ..++. .-++.++.......... +.....+.+.+
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~-e~~le~I~~~i  154 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLA-ETNLEDILASI  154 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEc-cCcHHHHHHHH
Confidence            46899999999999999999987762   22346788876543  33332 22345554322111111 11122333333


Q ss_pred             c-cCcEEEEEccccc
Q 038405          254 R-RKKFVLLLDDVWE  267 (863)
Q Consensus       254 ~-~k~~LlVlDdv~~  267 (863)
                      . .+.-+||+|.+..
T Consensus       155 ~~~~~~lVVIDSIq~  169 (372)
T cd01121         155 EELKPDLVIIDSIQT  169 (372)
T ss_pred             HhcCCcEEEEcchHH
Confidence            2 3667899999854

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.54  E-value=0.015  Score=59.05  Aligned_cols=27  Identities=30%  Similarity=0.388  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|.|..|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            567899999999999999999999876

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.53  E-value=0.062  Score=57.45  Aligned_cols=87  Identities=22%  Similarity=0.233  Sum_probs=48.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      ..++|+++|.+|+||||++..++....  ...+ .+..++.. .+...  +-++...+.++.+..  ...+...+...+.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~--~~Gk-kVglI~aD-t~RiaAvEQLk~yae~lgipv~--v~~d~~~L~~aL~  313 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH--GKKK-TVGFITTD-HSRIGTVQQLQDYVKTIGFEVI--AVRDEAAMTRALT  313 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH--HcCC-cEEEEecC-CcchHHHHHHHHHhhhcCCcEE--ecCCHHHHHHHHH
Confidence            347999999999999999999987762  1222 34455543 33322  223344445555432  2334555554443


Q ss_pred             HHhcc--CcEEEEEcccc
Q 038405          251 ISLRR--KKFVLLLDDVW  266 (863)
Q Consensus       251 ~~l~~--k~~LlVlDdv~  266 (863)
                      . ++.  +.=+|++|-.-
T Consensus       314 ~-lk~~~~~DvVLIDTaG  330 (436)
T PRK11889        314 Y-FKEEARVDYILIDTAG  330 (436)
T ss_pred             H-HHhccCCCEEEEeCcc
Confidence            3 332  23466777653

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.49  E-value=0.058  Score=57.67  Aligned_cols=58  Identities=14%  Similarity=0.251  Sum_probs=41.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccC----CCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNH----CFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      .-.++-|+|.+|+|||+++.+++.... ...    .=..++|++....|+..++.+ +++.++.
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~-~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~  162 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQ-LPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGL  162 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhc-cccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCC
Confidence            457899999999999999999876541 111    114799999988888877654 4455543

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.46  E-value=0.13  Score=57.85  Aligned_cols=48  Identities=27%  Similarity=0.291  Sum_probs=35.9

Q ss_pred             ccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCC
Q 038405          155 TVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF  205 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F  205 (863)
                      +=|.++-+.++.+.+.-             ...+=|..+|++|.|||++|+++++..   ...|
T Consensus       436 IGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nF  496 (693)
T KOG0730|consen  436 IGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNF  496 (693)
T ss_pred             ccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCe
Confidence            33577777777655521             345668899999999999999999987   4555

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.45  E-value=0.061  Score=54.81  Aligned_cols=88  Identities=15%  Similarity=0.081  Sum_probs=54.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---------------
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---------------  237 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---------------  237 (863)
                      .-+++.|+|.+|+|||++|.++.....   ..=..++|++..+.  ..++.+++ ++++......               
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~---~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGAL---KQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHH---hCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            457899999999999999999865541   22357889988655  34555443 3333221100               


Q ss_pred             ---cccChhhHHHHHHHHhcc-CcEEEEEcccc
Q 038405          238 ---NMKGEYDRAVEILISLRR-KKFVLLLDDVW  266 (863)
Q Consensus       238 ---~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  266 (863)
                         ...+.++....+.+.++. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence               012234555666666653 55578888875

>PRK08233 hypothetical protein; Provisional

Probab=95.43  E-value=0.011  Score=57.49  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|.+|+||||||+.++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999998776

>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=95.41  E-value=0.011  Score=46.99  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=20.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998874

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.39  E-value=0.07  Score=53.71  Aligned_cols=93  Identities=16%  Similarity=0.155  Sum_probs=56.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-----CCCHHHHHHHHHHHcCCCcccc-----cccC
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-----EGNLEKIQEVIRKKLDISDYIW-----NMKG  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~~~~-----~~~~  241 (863)
                      ..-.++||+|-+|.||||+++.+..-.   .... +.+++.-.+     .....+-..++++..+......     +-..
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L~---~pt~-G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSG  112 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGLE---EPTS-GEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSG  112 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcCc---CCCC-ceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCc
Confidence            345789999999999999999998765   2233 333333211     1123344556666666543211     1112


Q ss_pred             hhhHHHHHHHHhccCcEEEEEcccccc
Q 038405          242 EYDRAVEILISLRRKKFVLLLDDVWER  268 (863)
Q Consensus       242 ~~~~~~~l~~~l~~k~~LlVlDdv~~~  268 (863)
                      .+.-.-.|.+.|.-+.-+||.|..-+.
T Consensus       113 GQrQRi~IARALal~P~liV~DEpvSa  139 (268)
T COG4608         113 GQRQRIGIARALALNPKLIVADEPVSA  139 (268)
T ss_pred             hhhhhHHHHHHHhhCCcEEEecCchhh
Confidence            222223566778889999999986543

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.37  E-value=0.073  Score=54.34  Aligned_cols=95  Identities=14%  Similarity=0.072  Sum_probs=59.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccc-cccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc--c--ccCh-----
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFL-DVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW--N--MKGE-----  242 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~--~~~~-----  242 (863)
                      -+-++|.|-.|+|||+|+..+.+... ..+++-+.++++-+++.. ...++..++.+.=.......  .  ....     
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~  148 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERII  148 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHH
Confidence            35689999999999999999887651 012335788999888764 45666666655422211100  0  1111     


Q ss_pred             -hhHHHHHHHHhc---cCcEEEEEcccccc
Q 038405          243 -YDRAVEILISLR---RKKFVLLLDDVWER  268 (863)
Q Consensus       243 -~~~~~~l~~~l~---~k~~LlVlDdv~~~  268 (863)
                       ...+..+.++++   ++++|+++||+-..
T Consensus       149 a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         149 TPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence             112234566663   68999999998653

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.36  E-value=0.013  Score=58.57  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+..+|+|.|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998875

>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=95.36  E-value=0.043  Score=53.28  Aligned_cols=118  Identities=20%  Similarity=0.272  Sum_probs=63.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE---eCCCCCHHHHH------HHHHHHcCCCccc---cc-c
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA---VSKEGNLEKIQ------EVIRKKLDISDYI---WN-M  239 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---~~~~~~~~~~~------~~i~~~l~~~~~~---~~-~  239 (863)
                      .-.+++|+|..|.|||||++.++...    ....+.+++.   +. ..+.....      .++++.++.....   .. .
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~~g~~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~L   98 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILLDGKDLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNEL   98 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEECCEECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccC
Confidence            45689999999999999999998764    2233444432   21 11222211      1245555543211   01 1


Q ss_pred             cChhhHHHHHHHHhccCcEEEEEcccccccc---cccccccCCC-CCC-CeEEEEeecchh
Q 038405          240 KGEYDRAVEILISLRRKKFVLLLDDVWERLD---LSKTGVSLSD-CQN-GSKIVFTTRSEE  295 (863)
Q Consensus       240 ~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~~~~~~~l~~-~~~-gs~iivTTr~~~  295 (863)
                      ..-+...-.+.+.+-..+-++++|+.-..-+   ...+...+.. ... |..||++|.+..
T Consensus        99 S~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214          99 SGGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            1122233345566667888999999764322   2222222211 112 567888887643

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.35  E-value=0.035  Score=54.58  Aligned_cols=34  Identities=29%  Similarity=0.334  Sum_probs=26.3

Q ss_pred             HHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          165 VWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       165 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+..+..++-++..|.|.+|.||||+++.+....
T Consensus         9 a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    9 AVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            3344434455789999999999999999988776

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.33  E-value=0.042  Score=55.94  Aligned_cols=81  Identities=17%  Similarity=0.147  Sum_probs=48.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcccccc--CCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVN--HCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      -|+|.++|++|.|||+|.++++++. .++  +.|....-+.++..    .++.....    .    ..+-...+..+|.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEinsh----sLFSKWFs----E----SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINSH----SLFSKWFS----E----SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEehh----HHHHHHHh----h----hhhHHHHHHHHHHH
Confidence            4789999999999999999999987 332  33433334443322    22222221    1    12334556667777


Q ss_pred             HhccCcEE--EEEccccc
Q 038405          252 SLRRKKFV--LLLDDVWE  267 (863)
Q Consensus       252 ~l~~k~~L--lVlDdv~~  267 (863)
                      .+.++..|  +.+|.|..
T Consensus       244 Lv~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVES  261 (423)
T ss_pred             HHhCCCcEEEEEeHHHHH
Confidence            77665443  34588854

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.32  E-value=0.045  Score=56.42  Aligned_cols=36  Identities=19%  Similarity=0.277  Sum_probs=30.0

Q ss_pred             HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          163 DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       163 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++...++...+..+|.|+|.+|+|||||+..+.+..
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            334455566789999999999999999999999876

>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=95.32  E-value=0.086  Score=55.36  Aligned_cols=88  Identities=14%  Similarity=0.070  Sum_probs=53.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|..|+||||||.++....   ...-..++|+.....++...     ++.+++..+..   +....++....+
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            45799999999999999999988776   23346789999887776543     34455543221   223445555555


Q ss_pred             HHHhcc-CcEEEEEcccccc
Q 038405          250 LISLRR-KKFVLLLDDVWER  268 (863)
Q Consensus       250 ~~~l~~-k~~LlVlDdv~~~  268 (863)
                      .+.++. .--++|+|.|-..
T Consensus       124 e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT-
T ss_pred             HHHhhcccccEEEEecCccc
Confidence            555554 4458899998654

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 ....

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

Probab=95.32  E-value=0.046  Score=49.59  Aligned_cols=99  Identities=18%  Similarity=0.301  Sum_probs=43.7

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L  597 (863)
                      |++|+.+.+.. .+..++...|..++.|+.+.+.++  +..++. .+.++..|+++.+.+ .+..++.. +..+++|+.+
T Consensus        11 ~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i   86 (129)
T PF13306_consen   11 CSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNI   86 (129)
T ss_dssp             -TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEE
T ss_pred             CCCCCEEEECC-CeeEeChhhccccccccccccccc--ccccceeeeecccccccccccc-ccccccccccccccccccc
Confidence            45566665543 355555555666666666666553  333333 344555666666654 44444433 4446666666


Q ss_pred             ecCCCCCccccchhhhcCCCCCceeecc
Q 038405          598 LLDGMRHFHLIPARVFSSLLSLKVFSLF  625 (863)
Q Consensus       598 ~l~~~~~l~~lp~~~i~~L~~L~~L~l~  625 (863)
                      .+..+  +..++...+.++ +|+.+.+.
T Consensus        87 ~~~~~--~~~i~~~~f~~~-~l~~i~~~  111 (129)
T PF13306_consen   87 DIPSN--ITEIGSSSFSNC-NLKEINIP  111 (129)
T ss_dssp             EETTT---BEEHTTTTTT--T--EEE-T
T ss_pred             ccCcc--ccEEchhhhcCC-CceEEEEC
Confidence            66543  445555556565 66666554

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

Probab=95.31  E-value=0.036  Score=50.32  Aligned_cols=93  Identities=19%  Similarity=0.305  Sum_probs=30.9

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L  597 (863)
                      |++|+.+.+..+ +..++...|..++.|+.+.+..+  +..++. .+..+.+|+.+++..+ +..++.. +.+. +|+.+
T Consensus        34 ~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l~~i  108 (129)
T PF13306_consen   34 CTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPNN--LKSIGDNAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-NLKEI  108 (129)
T ss_dssp             -TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETST--T-EE-TTTTTT-TTECEEEETTT--BEEHTTTTTT--T--EE
T ss_pred             cccccccccccc-ccccceeeeeccccccccccccc--ccccccccccccccccccccCcc-ccEEchhhhcCC-CceEE
Confidence            445555555442 44444444555555555555432  222222 2334555555555433 4444332 3343 55555


Q ss_pred             ecCCCCCccccchhhhcCCCCC
Q 038405          598 LLDGMRHFHLIPARVFSSLLSL  619 (863)
Q Consensus       598 ~l~~~~~l~~lp~~~i~~L~~L  619 (863)
                      .+..+  +..++...|.++++|
T Consensus       109 ~~~~~--~~~i~~~~F~~~~~l  128 (129)
T PF13306_consen  109 NIPSN--ITKIEENAFKNCTKL  128 (129)
T ss_dssp             E-TTB---SS----GGG-----
T ss_pred             EECCC--ccEECCccccccccC
Confidence            54432  334444444444433

>TIGR00235 udk uridine kinase

Probab=95.30  E-value=0.013  Score=58.33  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +...+|+|+|++|+||||||+.++...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999998765

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=95.30  E-value=0.27  Score=52.96  Aligned_cols=40  Identities=25%  Similarity=0.386  Sum_probs=32.6

Q ss_pred             hhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          159 DSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       159 ~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +...+.+.+.+.+   ....+|||.|.=|+||||+.+.+.+..
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L   44 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL   44 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455666777754   467899999999999999999998887

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 [].

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.28  E-value=0.041  Score=53.34  Aligned_cols=26  Identities=35%  Similarity=0.509  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|.|..|.|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44689999999999999999998764

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.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.26  E-value=0.2  Score=52.60  Aligned_cols=25  Identities=24%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -+-|..+|++|.|||-||++||...
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHhh
Confidence            3568899999999999999999886

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.26  E-value=0.053  Score=59.94  Aligned_cols=93  Identities=15%  Similarity=0.248  Sum_probs=59.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccC------
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKG------  241 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~------  241 (863)
                      .-.-++|+|.+|+|||||+..+.+...  +.+-+.++++-+++.. .+.++...+...-.......    .+..      
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            345699999999999999999888762  2356788888777654 35566666654322211100    0111      


Q ss_pred             hhhHHHHHHHHh--c-cCcEEEEEccccc
Q 038405          242 EYDRAVEILISL--R-RKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~~~~~~l~~~l--~-~k~~LlVlDdv~~  267 (863)
                      ....+..+.+++  + ++++|+++||+-.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccchH
Confidence            112334556666  3 7999999999954

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.26  E-value=0.064  Score=55.12  Aligned_cols=92  Identities=17%  Similarity=0.074  Sum_probs=57.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhh---HHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYD---RAVE  248 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~---~~~~  248 (863)
                      +.-+++=|+|+.|+||||+|.+++-..   ...-..++|++.-..++++.+..--...+..-. ..+..+.++   .+..
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~-v~~~~~~e~q~~i~~~  133 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQLGVDLLDNLL-VSQPDTGEQQLEIAEK  133 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHHHHHhhhccee-EecCCCHHHHHHHHHH
Confidence            345789999999999999999987665   334448899999999998776543332121100 001222222   3333


Q ss_pred             HHHHhccCcEEEEEccccc
Q 038405          249 ILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       249 l~~~l~~k~~LlVlDdv~~  267 (863)
                      +......+--|+|+|.|-.
T Consensus       134 ~~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         134 LARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHHhccCCCCEEEEecCcc
Confidence            3333333567999999854

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=0.3  Score=47.89  Aligned_cols=55  Identities=27%  Similarity=0.392  Sum_probs=39.5

Q ss_pred             ccc-chhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          154 KTV-GADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       154 ~~v-Gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      ++| |.+..+.+|.+.+.-             .+.+=+.++|++|.|||-||++||++-        .+-|+.||..
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht--------~c~firvsgs  215 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGS  215 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechH
Confidence            345 467777777766521             344557899999999999999999875        3456677644

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.22  E-value=0.056  Score=59.17  Aligned_cols=91  Identities=21%  Similarity=0.212  Sum_probs=51.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc----cccCh------
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW----NMKGE------  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~----~~~~~------  242 (863)
                      .-..++|+|..|+|||||++.+....   . ....++...--+...+.++....+..-+......    .....      
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~---~-~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a  214 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT---D-ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQA  214 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC---C-CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHH
Confidence            44679999999999999999888764   1 2223332222333345555555544332221100    01111      


Q ss_pred             hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ...+..+.+++  +++++||++||+-.
T Consensus       215 ~~~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       215 AYTATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhH
Confidence            11233456666  47899999999854

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.20  E-value=0.071  Score=58.46  Aligned_cols=91  Identities=21%  Similarity=0.161  Sum_probs=50.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc--ccc-cC------hh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI--WNM-KG------EY  243 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~-~~------~~  243 (863)
                      .-..++|+|..|+|||||++.+....    .....++++.--+..++.++....+.......-.  .+. ..      ..
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~  239 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAP  239 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHH
Confidence            34679999999999999999887654    2223444443334445554444333322110000  011 11      11


Q ss_pred             hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          244 DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       244 ~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ..+..+.+++  +++.+|+++||+-.
T Consensus       240 ~~a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        240 LTATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchHH
Confidence            1223455555  47999999999854

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.19  E-value=0.048  Score=60.10  Aligned_cols=43  Identities=12%  Similarity=0.103  Sum_probs=36.8

Q ss_pred             cccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++||++.++.+...+..+  .-|.|.|.+|+|||++|+.+....
T Consensus        21 ~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            4789999999988887553  357899999999999999999865

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.16  E-value=0.096  Score=54.02  Aligned_cols=124  Identities=15%  Similarity=0.123  Sum_probs=67.3

Q ss_pred             HHHHHHhhc-cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE---eCCCCCHHHHHHHHHHHcC-CCccc
Q 038405          162 LDEVWGCIE-DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA---VSKEGNLEKIQEVIRKKLD-ISDYI  236 (863)
Q Consensus       162 ~~~l~~~L~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---~~~~~~~~~~~~~i~~~l~-~~~~~  236 (863)
                      .+.++..+. .....-++|+|..|.|||||.+.++....    ...+.+++.   +.......    ++..... .+...
T Consensus        98 ~~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g~~v~~~d~~~----ei~~~~~~~~q~~  169 (270)
T TIGR02858        98 ADKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRGKKVGIVDERS----EIAGCVNGVPQHD  169 (270)
T ss_pred             HHHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECCEEeecchhHH----HHHHHhccccccc
Confidence            344444443 34457899999999999999999997762    222333332   11111112    2322221 11110


Q ss_pred             ----ccccChhhHHHHHHHHhc-cCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhh
Q 038405          237 ----WNMKGEYDRAVEILISLR-RKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEV  296 (863)
Q Consensus       237 ----~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v  296 (863)
                          .+..+....+..+...+. ..+=++++|.+-....+..+...+   ..|..||+||-+..+
T Consensus       170 ~~~r~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~  231 (270)
T TIGR02858       170 VGIRTDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDV  231 (270)
T ss_pred             ccccccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHH
Confidence                011111222333444443 578899999997766565554443   247789999976543

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.15  E-value=0.18  Score=53.77  Aligned_cols=88  Identities=22%  Similarity=0.164  Sum_probs=53.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      +.++++|+|+.|+||||++..++.... ..  -..+.+++..... ...+-++...+.++.+..  ...+..++...+. 
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~-~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~-  278 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL-KQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQ-  278 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-Hc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHH-
Confidence            467999999999999999999887652 12  2356666654332 223445556666665432  2345555544443 


Q ss_pred             Hhc--cCcEEEEEcccc
Q 038405          252 SLR--RKKFVLLLDDVW  266 (863)
Q Consensus       252 ~l~--~k~~LlVlDdv~  266 (863)
                      .++  +..=+|++|-.-
T Consensus       279 ~l~~~~~~D~VLIDTAG  295 (407)
T PRK12726        279 YMTYVNCVDHILIDTVG  295 (407)
T ss_pred             HHHhcCCCCEEEEECCC
Confidence            333  334567778764

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.14  E-value=0.23  Score=52.91  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+.++|+.|+||||+|+.++...
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~l   45 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQAL   45 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHH
Confidence            3468899999999999999887764

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.14  E-value=0.099  Score=54.36  Aligned_cols=27  Identities=22%  Similarity=0.178  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|||.|..|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999998776544

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.

>PRK04328 hypothetical protein; Provisional

Probab=95.13  E-value=0.061  Score=55.18  Aligned_cols=41  Identities=17%  Similarity=0.104  Sum_probs=31.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      .-.++.|.|.+|+|||+||.++....   ...-..++|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC
Confidence            45789999999999999999876654   123456888887664

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.09  E-value=0.0028  Score=62.72  Aligned_cols=96  Identities=24%  Similarity=0.283  Sum_probs=75.2

Q ss_pred             ccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch--hhhcccccceeec
Q 038405          500 REDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA--EMGALINLRCLNL  576 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~--~i~~L~~L~~L~L  576 (863)
                      .+++.|++|++.+..+.... ++.|++|.|+-|.++.+.+  +..|++|+.|-|..| .|..+-+  .+.++++|+.|-|
T Consensus        19 ~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   19 ENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHhhhhcccCCCccHHHHHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhhHhh
Confidence            36778899999888776665 8999999999999988876  789999999999999 6766643  3568999999999


Q ss_pred             cCCC-ccccc-----hhhhcccCccEEe
Q 038405          577 SNTS-IEELP-----SEIMYLKNLKILL  598 (863)
Q Consensus       577 ~~~~-i~~lP-----~~i~~L~~L~~L~  598 (863)
                      ..|. ..+-+     ..+.-|++|+.||
T Consensus        96 ~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   96 DENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ccCCcccccchhHHHHHHHHcccchhcc
Confidence            8872 22222     2356788888886

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.09  E-value=0.52  Score=47.28  Aligned_cols=198  Identities=13%  Similarity=0.150  Sum_probs=106.5

Q ss_pred             cccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCC----------C---
Q 038405          154 KTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKE----------G---  217 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~----------~---  217 (863)
                      ...++++...++.+.....+.+-..++|++|.||-|.+..+.+....   .+-.-+..-|.+-+..          +   
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlE   93 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLE   93 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEE
Confidence            35678888888887777677889999999999999977666554411   1112234444432222          0   


Q ss_pred             --------CHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcE-EEEEcccccc--cccccccccCCCCCCCeE
Q 038405          218 --------NLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKF-VLLLDDVWER--LDLSKTGVSLSDCQNGSK  286 (863)
Q Consensus       218 --------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~--~~~~~~~~~l~~~~~gs~  286 (863)
                              .-+-+.+++++...-....              +.-..+.| ++|+-.+++-  +.-..++.....-.+.+|
T Consensus        94 itPSDaG~~DRvViQellKevAQt~qi--------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   94 ITPSDAGNYDRVVIQELLKEVAQTQQI--------------ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             eChhhcCcccHHHHHHHHHHHHhhcch--------------hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                    1122334444433211100              00012334 3444444432  111122211112233455


Q ss_pred             EEEeecch----------hhh--cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHHHHHhCC
Q 038405          287 IVFTTRSE----------EVC--VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIARAMSSR  353 (863)
Q Consensus       287 iivTTr~~----------~v~--l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l~~~  353 (863)
                      +|+...+-          -..  +..-+++|....++..+.......+   .+++.+|+++++|.- -|+-++ ..++-+
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllml-E~~~~~  235 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLML-EAVRVN  235 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHH-HHHHhc
Confidence            55432221          111  7778999999999888765553332   789999999998864 343332 222211


Q ss_pred             ----------CChhhHHHHHHHHhcC
Q 038405          354 ----------RSPREWQYVIDELQRN  369 (863)
Q Consensus       354 ----------~~~~~w~~~~~~l~~~  369 (863)
                                -...+|+-++.++.+.
T Consensus       236 n~~~~a~~~~i~~~dWe~~i~e~a~~  261 (351)
T KOG2035|consen  236 NEPFTANSQVIPKPDWEIYIQEIARV  261 (351)
T ss_pred             cccccccCCCCCCccHHHHHHHHHHH
Confidence                      2456899888776544

>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=95.07  E-value=0.078  Score=51.83  Aligned_cols=45  Identities=22%  Similarity=0.134  Sum_probs=31.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      ++.|.|.+|+|||+||.++.....   ..=..++|++...+  ..++.+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~~--~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEES--PEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCCC--HHHHHHH
Confidence            367999999999999999877652   22245778876544  4444433

A related protein is found in archaea.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.06  E-value=0.052  Score=52.16  Aligned_cols=113  Identities=13%  Similarity=0.145  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc--c---CCCC--EEEEEEeCCCCCHHHHHHHHHHHcCCCcc---c-ccccC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV--N---HCFD--LVIFVAVSKEGNLEKIQEVIRKKLDISDY---I-WNMKG  241 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~---~~F~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---~-~~~~~  241 (863)
                      .-.+++|+|+.|+|||||.+.+..+.-.+  .   ..|.  .+.|+  .+        .+.++.++....   . ...-+
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LS   89 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLS   89 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCC
Confidence            44689999999999999999886321111  0   0111  12232  21        355666665321   0 01111


Q ss_pred             h-hhHHHHHHHHhccC--cEEEEEcccccccc---cccccccCCC-CCCCeEEEEeecchh
Q 038405          242 E-YDRAVEILISLRRK--KFVLLLDDVWERLD---LSKTGVSLSD-CQNGSKIVFTTRSEE  295 (863)
Q Consensus       242 ~-~~~~~~l~~~l~~k--~~LlVlDdv~~~~~---~~~~~~~l~~-~~~gs~iivTTr~~~  295 (863)
                      . +...-.+...+-.+  .=++++|+.-..-+   ...+...+.. ...|..||++|.+..
T Consensus        90 gGq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238          90 GGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             HHHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            1 22223344555556  77888898754322   1222222211 124667888887743

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>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=95.06  E-value=0.016  Score=53.87  Aligned_cols=23  Identities=39%  Similarity=0.465  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            68899999999999999998765

...

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.05  E-value=0.11  Score=55.58  Aligned_cols=59  Identities=10%  Similarity=0.118  Sum_probs=41.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      .-.++-|+|.+|+||||++.+++......   ...=..++||+....|+.+++. ++++.++.
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            45788999999999999999987654110   0011379999998888877754 44555544

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.04  E-value=0.1  Score=54.16  Aligned_cols=90  Identities=23%  Similarity=0.139  Sum_probs=49.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccc-cccChhhHH-HH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIW-NMKGEYDRA-VE  248 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~-~~~~~~~~~-~~  248 (863)
                      +.++|.++|++|+||||++..++....   ..-..+.+++.. .+...  +-+....+..+.+.... ...++.... ..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~---~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK---KQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            457999999999999999998887762   222355666544 33332  23344455555432100 112222222 23


Q ss_pred             HHHHhccCcEEEEEcccc
Q 038405          249 ILISLRRKKFVLLLDDVW  266 (863)
Q Consensus       249 l~~~l~~k~~LlVlDdv~  266 (863)
                      +.....+..=++++|-.-
T Consensus       147 l~~~~~~~~D~ViIDT~G  164 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAG  164 (272)
T ss_pred             HHHHHHCCCCEEEEeCCC
Confidence            333333444577788764

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.03  E-value=0.029  Score=53.41  Aligned_cols=113  Identities=19%  Similarity=0.239  Sum_probs=59.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC--CCHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE--GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      .-.+++|+|..|.|||||.+.++...    ....+.+++.-..-  .+..+.   ....++.-   ++-..-+...-.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~---~~~~i~~~---~qLS~G~~qrl~la   94 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDA---RRAGIAMV---YQLSVGERQMVEIA   94 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHH---HhcCeEEE---EecCHHHHHHHHHH
Confidence            44689999999999999999998764    23344555432111  111111   11111110   11222223333455


Q ss_pred             HHhccCcEEEEEcccccccc---cccccccCCC-CCCCeEEEEeecchh
Q 038405          251 ISLRRKKFVLLLDDVWERLD---LSKTGVSLSD-CQNGSKIVFTTRSEE  295 (863)
Q Consensus       251 ~~l~~k~~LlVlDdv~~~~~---~~~~~~~l~~-~~~gs~iivTTr~~~  295 (863)
                      +.+-.++-++++|+.-..-|   ...+...+.. ...|..||++|.+..
T Consensus        95 ral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216          95 RALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             HHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            56667778889998754322   1222222211 123567888887643

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.99  E-value=0.019  Score=54.59  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.+.|.+|+||||+|++++...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            467889999999999999998876

>PRK06762 hypothetical protein; Provisional

Probab=94.98  E-value=0.017  Score=55.22  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998775

>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=94.98  E-value=0.077  Score=53.22  Aligned_cols=23  Identities=30%  Similarity=0.341  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|||.|.+|+||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>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=94.98  E-value=0.023  Score=52.79  Aligned_cols=35  Identities=26%  Similarity=0.282  Sum_probs=27.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA  212 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  212 (863)
                      .||-|.|.+|+||||||+++..+..   ..-..+.++.
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~---~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLF---ARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH---HTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEec
Confidence            5899999999999999999999882   2334455554

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 ....

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.98  E-value=0.069  Score=49.59  Aligned_cols=26  Identities=42%  Similarity=0.592  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            44789999999999999999998765

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK08149 ATP synthase SpaL; Validated

Probab=94.97  E-value=0.099  Score=57.21  Aligned_cols=91  Identities=15%  Similarity=0.218  Sum_probs=54.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcccc--c--ccC-----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYIW--N--MKG-----  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~--~--~~~-----  241 (863)
                      ..-..++|+|..|+|||||+..++...     .-+.+++..+... .++.++..+............  .  +..     
T Consensus       149 ~~Gq~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~  223 (428)
T PRK08149        149 GVGQRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRC  223 (428)
T ss_pred             ecCCEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHH
Confidence            344679999999999999999988754     1234444444443 345566666655432211000  0  111     


Q ss_pred             -hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 -EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 -~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ....+..+.+++  ++|++||++||+-.
T Consensus       224 ~a~~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        224 NAALVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             hHHHHHHHHHHHHHHcCCCEEEEccchHH
Confidence             112333455555  57999999999854

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=94.96  E-value=0.084  Score=53.10  Aligned_cols=121  Identities=17%  Similarity=0.164  Sum_probs=67.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccC----------CC---CEEEEEEe----CCCC--CH---------------
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNH----------CF---DLVIFVAV----SKEG--NL---------------  219 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----------~F---~~~~wv~~----~~~~--~~---------------  219 (863)
                      -..++|+|+.|.|||||.+.+..-....++          .+   ..+.||.=    ...|  ++               
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~  109 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWF  109 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccccc
Confidence            378999999999999999998873311000          01   24555531    1111  11               


Q ss_pred             -------HHHHHHHHHHcCCCccc---ccccChhhH-HHHHHHHhccCcEEEEEccccc------ccccccccccCCCCC
Q 038405          220 -------EKIQEVIRKKLDISDYI---WNMKGEYDR-AVEILISLRRKKFVLLLDDVWE------RLDLSKTGVSLSDCQ  282 (863)
Q Consensus       220 -------~~~~~~i~~~l~~~~~~---~~~~~~~~~-~~~l~~~l~~k~~LlVlDdv~~------~~~~~~~~~~l~~~~  282 (863)
                             .+...+.++..++....   ...-+-.+. .-.|.+.|..+.=|||||.--.      .....++...+... 
T Consensus       110 ~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e-  188 (254)
T COG1121         110 RRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE-  188 (254)
T ss_pred             ccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC-
Confidence                   13344455555543211   111122233 3356677889999999997432      22333343333332 


Q ss_pred             CCeEEEEeecchhh
Q 038405          283 NGSKIVFTTRSEEV  296 (863)
Q Consensus       283 ~gs~iivTTr~~~v  296 (863)
                       |.-|+++|-+-..
T Consensus       189 -g~tIl~vtHDL~~  201 (254)
T COG1121         189 -GKTVLMVTHDLGL  201 (254)
T ss_pred             -CCEEEEEeCCcHH
Confidence             8889999987553

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=94.96  E-value=0.13  Score=52.28  Aligned_cols=41  Identities=24%  Similarity=0.198  Sum_probs=30.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      .-.++.|.|.+|+||||+|.++.....   ..-..++|++....
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~~~~~is~e~~   59 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGDPVIYVTTEES   59 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH---hcCCeEEEEEccCC
Confidence            457899999999999999998765441   22357788886443

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.95  E-value=0.11  Score=56.36  Aligned_cols=88  Identities=17%  Similarity=0.105  Sum_probs=52.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcccccc-CCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVN-HCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      .++|.++|..|+||||.+..++....... ..-..+..++.. ++...  .-++...+.++.+..  ...+..+....+.
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~L~  250 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEEIT  250 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHHHH
Confidence            47899999999999999998887652111 122345556554 33332  235556666666532  2333444444343


Q ss_pred             HHhccCcEEEEEcccc
Q 038405          251 ISLRRKKFVLLLDDVW  266 (863)
Q Consensus       251 ~~l~~k~~LlVlDdv~  266 (863)
                      + + .+.-++++|...
T Consensus       251 ~-~-~~~DlVLIDTaG  264 (388)
T PRK12723        251 Q-S-KDFDLVLVDTIG  264 (388)
T ss_pred             H-h-CCCCEEEEcCCC
Confidence            3 2 345678889874

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.95  E-value=0.051  Score=52.27  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||.+.++.-.
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            345689999999999999999998765

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05922 type III secretion system ATPase; Validated

Probab=94.95  E-value=0.097  Score=57.33  Aligned_cols=91  Identities=15%  Similarity=0.217  Sum_probs=52.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcccc--cccC-------
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYIW--NMKG-------  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~--~~~~-------  241 (863)
                      ..-..++|+|..|+|||||.+.+....    . .+...++-+++. ..+...+.+............  ...+       
T Consensus       155 ~~GqrigI~G~nG~GKSTLL~~Ia~~~----~-~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~  229 (434)
T PRK05922        155 GKGQRIGVFSEPGSGKSSLLSTIAKGS----K-STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKV  229 (434)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccC----C-CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHH
Confidence            344569999999999999999998764    1 233444434332 334445544444332221100  0111       


Q ss_pred             -hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 -EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 -~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ....+..+.+++  +++++|+++||+-.
T Consensus       230 ~a~~~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        230 IAGRAAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence             111233455666  47999999999854

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=94.94  E-value=0.073  Score=57.84  Aligned_cols=45  Identities=24%  Similarity=0.384  Sum_probs=34.8

Q ss_pred             cccchhh---HHHHHHHhhccCC---------ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADS---KLDEVWGCIEDQS---------EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~---~~~~l~~~L~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.-|-|+   ++++|+++|.++.         .+=|.++|++|.|||-||++|+-..
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            3447654   6777888887631         2447899999999999999999876

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.90  E-value=0.02  Score=56.16  Aligned_cols=26  Identities=31%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.|+|++|+||||+|+.++...
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998664

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=94.89  E-value=0.075  Score=62.45  Aligned_cols=45  Identities=22%  Similarity=0.297  Sum_probs=31.0

Q ss_pred             cccchhhHHHHHHH---hhcc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWG---CIED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~---~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++.|.+...+++.+   ++.+         .-.+-|.++|++|.|||++|+.++...
T Consensus       153 di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~  209 (644)
T PRK10733        153 DVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA  209 (644)
T ss_pred             HHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            45576665555544   3322         112348999999999999999998876

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=94.85  E-value=0.048  Score=55.20  Aligned_cols=90  Identities=17%  Similarity=0.109  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------------cc-
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------------WN-  238 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------~~-  238 (863)
                      .-.++.|.|.+|+|||++|.++...... . .=+.++|++..+++  .++.+.+. .++.....             .. 
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~-~-~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLK-N-FGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH-H-HT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhh-h-cCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            4578999999999999999987655411 1 02467888876553  44444432 34322110             00 


Q ss_pred             ----ccChhhHHHHHHHHhcc-CcEEEEEccccc
Q 038405          239 ----MKGEYDRAVEILISLRR-KKFVLLLDDVWE  267 (863)
Q Consensus       239 ----~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  267 (863)
                          ..+.+.....+.+.++. +...+|+|.+..
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~  126 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSLSA  126 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECHHH
Confidence                23455666666666654 557888888743

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 ....

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=94.83  E-value=0.11  Score=55.20  Aligned_cols=86  Identities=19%  Similarity=0.231  Sum_probs=52.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISL  253 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  253 (863)
                      -.+|.|-|-+|||||||..+++.+..   ..- .++||+--+..  .++ +--++.++.+...... -.+...+.|.+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~-~vLYVsGEES~--~Qi-klRA~RL~~~~~~l~l-~aEt~~e~I~~~l  164 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLA---KRG-KVLYVSGEESL--QQI-KLRADRLGLPTNNLYL-LAETNLEDIIAEL  164 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHH---hcC-cEEEEeCCcCH--HHH-HHHHHHhCCCccceEE-ehhcCHHHHHHHH
Confidence            47899999999999999999999872   222 67887655442  222 2234556644321111 1112223333333


Q ss_pred             c-cCcEEEEEccccc
Q 038405          254 R-RKKFVLLLDDVWE  267 (863)
Q Consensus       254 ~-~k~~LlVlDdv~~  267 (863)
                      . .+.-++|+|-+..
T Consensus       165 ~~~~p~lvVIDSIQT  179 (456)
T COG1066         165 EQEKPDLVVIDSIQT  179 (456)
T ss_pred             HhcCCCEEEEeccce
Confidence            3 5888999999865

>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=94.83  E-value=0.015  Score=51.56  Aligned_cols=27  Identities=37%  Similarity=0.492  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHhhhhhhccccccCCCC
Q 038405          177 IGLYGMGGVGKITLLKKPNNKFLDVNHCFD  206 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~  206 (863)
                      |.|+|.+|+||||+|+.++...   ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCcee
Confidence            6799999999999999999876   55664

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=94.82  E-value=0.029  Score=53.93  Aligned_cols=23  Identities=43%  Similarity=0.502  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|.+|+||||+|+.+.++.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999886

>PRK03839 putative kinase; Provisional

Probab=94.81  E-value=0.02  Score=55.72  Aligned_cols=23  Identities=39%  Similarity=0.511  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|+|++|+||||+|+.++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999886

>PTZ00494 tuzin-like protein; Provisional

Probab=94.80  E-value=1.1  Score=48.40  Aligned_cols=73  Identities=16%  Similarity=0.216  Sum_probs=57.6

Q ss_pred             ccccchhhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      ..+|.|+.+-..+.+.|..   ...+++.+.|.-|.||++|.+....+. .+     ..++|.+...   ++-++.|.++
T Consensus       371 ~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE-~~-----paV~VDVRg~---EDtLrsVVKA  441 (664)
T PTZ00494        371 AFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE-GV-----ALVHVDVGGT---EDTLRSVVRA  441 (664)
T ss_pred             ccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc-CC-----CeEEEEecCC---cchHHHHHHH
Confidence            5688998887777777744   568999999999999999999887765 22     4678888765   5567888999


Q ss_pred             cCCCc
Q 038405          230 LDISD  234 (863)
Q Consensus       230 l~~~~  234 (863)
                      ++.+.
T Consensus       442 LgV~n  446 (664)
T PTZ00494        442 LGVSN  446 (664)
T ss_pred             hCCCC
Confidence            98875

>PRK12678 transcription termination factor Rho; Provisional

Probab=94.80  E-value=0.046  Score=60.83  Aligned_cols=101  Identities=20%  Similarity=0.123  Sum_probs=53.2

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEE-EEEeCCCCC-HHHHHHHHHHHcCCC-cccc--c
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVI-FVAVSKEGN-LEKIQEVIRKKLDIS-DYIW--N  238 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~-wv~~~~~~~-~~~~~~~i~~~l~~~-~~~~--~  238 (863)
                      +++++.- ..-.-.+|+|.+|+|||||++.+++...  ..+-+..+ .+-|.+-+. +..+.+.+-..+-.. .+..  .
T Consensus       406 vIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~  483 (672)
T PRK12678        406 VIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSD  483 (672)
T ss_pred             eeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHH
Confidence            3444432 3345688999999999999999998652  22333333 444444432 333333321111000 0000  0


Q ss_pred             ccChhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          239 MKGEYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       239 ~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      .......+..+.+++  .++.+||++|++-.
T Consensus       484 ~~~~a~~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        484 HTTVAELAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence            011222334455565  57999999999854

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.78  E-value=0.039  Score=50.76  Aligned_cols=39  Identities=18%  Similarity=0.323  Sum_probs=28.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      ++|.|+|..|+|||||++.+.+...  +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~--~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK--RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh--HcCCceEEEEEccC
Confidence            4799999999999999999999983  35566666666555

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=94.76  E-value=0.086  Score=50.37  Aligned_cols=113  Identities=16%  Similarity=0.167  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCC--CC---EEEEEEeCCCCCH--HHHHHHHHHHcCCCcccccccChhhH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHC--FD---LVIFVAVSKEGNL--EKIQEVIRKKLDISDYIWNMKGEYDR  245 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--F~---~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~  245 (863)
                      .-.+++|+|..|.|||||++.+........+.  ++   .+.++  .+.+..  ..+...+.-.   ..  ..-..-+..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~--~~LS~G~~~   98 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WD--DVLSGGEQQ   98 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc---CC--CCCCHHHHH
Confidence            44689999999999999999998765211111  11   12222  222211  1222222210   10  012222333


Q ss_pred             HHHHHHHhccCcEEEEEccccccccc---ccccccCCCCCCCeEEEEeecch
Q 038405          246 AVEILISLRRKKFVLLLDDVWERLDL---SKTGVSLSDCQNGSKIVFTTRSE  294 (863)
Q Consensus       246 ~~~l~~~l~~k~~LlVlDdv~~~~~~---~~~~~~l~~~~~gs~iivTTr~~  294 (863)
                      .-.+.+.+-.++=++++|+.-..-+.   ..+...+...  +..||++|.+.
T Consensus        99 rv~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~  148 (166)
T cd03223          99 RLAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRP  148 (166)
T ss_pred             HHHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCCh
Confidence            34455666677788899986543221   1222222111  35677777764

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.76  E-value=0.12  Score=55.15  Aligned_cols=60  Identities=10%  Similarity=0.094  Sum_probs=42.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDIS  233 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~  233 (863)
                      ...++-|+|.+|+|||+||..++-....   ....-..++|++....|..+++. +|++.++..
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~  184 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLN  184 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCC
Confidence            4578899999999999999887743210   01122379999999999888764 556666543

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.75  E-value=0.097  Score=54.09  Aligned_cols=104  Identities=18%  Similarity=0.206  Sum_probs=57.8

Q ss_pred             cchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc
Q 038405          156 VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY  235 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  235 (863)
                      .|......+.+..+......+|.|.|..|+||||+++.+.+..   ...-..++.+.-...+....+     .++..   
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i---~~~~~~iitiEdp~E~~~~~~-----~q~~v---  130 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL---NTPEKNIITVEDPVEYQIPGI-----NQVQV---  130 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh---CCCCCeEEEECCCceecCCCc-----eEEEe---
Confidence            3554444444444434455789999999999999999887654   111112333321111111100     01110   


Q ss_pred             cccccChhhHHHHHHHHhccCcEEEEEcccccccccc
Q 038405          236 IWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLS  272 (863)
Q Consensus       236 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~  272 (863)
                        ...........++..|+...=.|+++++.+.+...
T Consensus       131 --~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         131 --NEKAGLTFARGLRAILRQDPDIIMVGEIRDAETAE  165 (264)
T ss_pred             --CCcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHH
Confidence              11111235566777788888899999998876544

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.75  E-value=0.023  Score=57.14  Aligned_cols=22  Identities=41%  Similarity=0.463  Sum_probs=20.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|++|+||||+|+.++...
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999998876

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=94.74  E-value=0.094  Score=49.49  Aligned_cols=26  Identities=35%  Similarity=0.302  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-..+.++|++|.||||+.+.+|...
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhh
Confidence            44678999999999999999999876

>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=94.74  E-value=0.12  Score=51.20  Aligned_cols=89  Identities=22%  Similarity=0.396  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCccc--c--cccChhh----
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYI--W--NMKGEYD----  244 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~--~--~~~~~~~----  244 (863)
                      -.-++|+|.+|+|||+|+..+.+..   .  -+.++++.+++.. .+.++.+++...-......  .  .......    
T Consensus        15 Gqr~~I~g~~g~GKt~Ll~~i~~~~---~--~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~   89 (215)
T PF00006_consen   15 GQRIGIFGGAGVGKTVLLQEIANNQ---D--ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRA   89 (215)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHC---T--TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHH
T ss_pred             CCEEEEEcCcccccchhhHHHHhcc---c--ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhh
Confidence            3568999999999999999999876   1  2455888887653 4555666554331111100  0  0111111    


Q ss_pred             --HHHHHHHHh--ccCcEEEEEccccc
Q 038405          245 --RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       245 --~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        .+..+.+++  ++|.+|+++||+-.
T Consensus        90 ~~~a~t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   90 PYTALTIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHHHHHHTTSEEEEEEETHHH
T ss_pred             hccchhhhHHHhhcCCceeehhhhhHH
Confidence              122334444  58999999999843

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 ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.72  E-value=0.044  Score=49.49  Aligned_cols=38  Identities=21%  Similarity=0.206  Sum_probs=28.2

Q ss_pred             HHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          161 KLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       161 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+++-+.|..  ..-.+|.+.|.-|.||||+++.++...
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            33444444432  344689999999999999999999876

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.69  E-value=0.093  Score=57.66  Aligned_cols=93  Identities=18%  Similarity=0.330  Sum_probs=58.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc----cccC------
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW----NMKG------  241 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~----~~~~------  241 (863)
                      .-.-++|.|.+|+|||+|+..+.....  +.+-+.++|+-+++... +.++.+++...-.......    ....      
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~--~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMV--GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            345689999999999999999887752  23347888888876643 5556666654322111000    0111      


Q ss_pred             hhhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          242 EYDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      ....+..+.++++   ++++|+++||+-.
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHH
Confidence            1122345667764   5899999999854

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.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.66  E-value=0.1  Score=57.22  Aligned_cols=91  Identities=16%  Similarity=0.187  Sum_probs=54.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc----cccCh----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW----NMKGE----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~----  242 (863)
                      ..-..++|+|..|+|||||++.+++..     ..+.++++-+++... +.++....+..-+......    .+...    
T Consensus       156 ~~Gqri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~  230 (442)
T PRK08927        156 CRGQRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRR  230 (442)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHH
Confidence            345678999999999999999998765     124556666665543 4455544444322211100    01111    


Q ss_pred             --hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  +++.+|+++||+-.
T Consensus       231 ~a~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        231 QAAYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence              11223455666  47999999999854

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.66  E-value=0.11  Score=57.27  Aligned_cols=93  Identities=15%  Similarity=0.256  Sum_probs=57.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccCh-----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGE-----  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~-----  242 (863)
                      .-.-++|.|.+|+|||||+..+.....  ..+=+.++++-+++.. .+.++.+++...-.......    .....     
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~--~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            345689999999999999998876652  1222467777776654 35666666665422211100    01111     


Q ss_pred             -hhHHHHHHHHh---ccCcEEEEEccccc
Q 038405          243 -YDRAVEILISL---RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 -~~~~~~l~~~l---~~k~~LlVlDdv~~  267 (863)
                       ...+..+.+++   +++++||++||+-.
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence             12234566766   57999999999854

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.64  E-value=0.042  Score=54.06  Aligned_cols=42  Identities=17%  Similarity=0.230  Sum_probs=28.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCC-------CEEEEEEeCCC
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-------DLVIFVAVSKE  216 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-------~~~~wv~~~~~  216 (863)
                      .++.|+|.+|+||||++..+..........|       ..++|++...+
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            5789999999999999999887763211122       36778876655

>PRK14974 cell division protein FtsY; Provisional

Probab=94.64  E-value=0.21  Score=53.16  Aligned_cols=91  Identities=19%  Similarity=0.139  Sum_probs=48.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccc-cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIW-NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l  249 (863)
                      +..+|.++|+.|+||||++..++....  ...+ .++.+. .+.+..  .+-++...+.++.+.... ...+....+...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~--~~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~a  214 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK--KNGF-SVVIAA-GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDA  214 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH--HcCC-eEEEec-CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHH
Confidence            467999999999999998888887662  2223 333443 333332  233455666676543211 112222222222


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      .+..+ ...=++++|-.-.
T Consensus       215 i~~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        215 IEHAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHHHhCCCCEEEEECCCc
Confidence            22221 2223888888743

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.63  E-value=0.063  Score=57.96  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=35.7

Q ss_pred             ccccchhhHHHHHHHhhccC--------------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQ--------------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.++.+..+.-.+...              ..+-|.++|++|+|||++|+.++...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45778888888776555320              13578899999999999999999876

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.63  E-value=0.17  Score=53.50  Aligned_cols=91  Identities=19%  Similarity=0.220  Sum_probs=53.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-CCCHHHHHHHHHHHcCCCcccc----cccC-----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-EGNLEKIQEVIRKKLDISDYIW----NMKG-----  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~----~~~~-----  241 (863)
                      ..-..++|+|..|.|||||.+.+....   .  -+..+..-+.. ..++.++.......-+......    ....     
T Consensus        67 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~---~--~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~  141 (326)
T cd01136          67 GKGQRLGIFAGSGVGKSTLLGMIARGT---T--ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRV  141 (326)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhCCC---C--CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHH
Confidence            344678999999999999999988765   1  23344444443 3455555555554432211100    0111     


Q ss_pred             -hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 -EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 -~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ....+..+.+++  ++|.+|+++||+-.
T Consensus       142 ~~~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         142 KAAYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence             111223445555  47999999999854

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.

>PRK06217 hypothetical protein; Validated

Probab=94.62  E-value=0.046  Score=53.22  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|.+|+||||+|+++....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999876

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.62  E-value=0.051  Score=52.36  Aligned_cols=49  Identities=27%  Similarity=0.310  Sum_probs=35.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      ..+|+|-||=|+||||||+.++++.   .  | ..++-.+.+++-+.....++-+
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l---~--~-~~~~E~vednp~L~~FY~d~~~   52 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL---G--F-KVFYELVEDNPFLDLFYEDPER   52 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh---C--C-ceeeecccCChHHHHHHHhHHH
Confidence            4689999999999999999999987   2  2 2344445556555555555544

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=94.60  E-value=0.08  Score=58.20  Aligned_cols=46  Identities=17%  Similarity=0.209  Sum_probs=35.1

Q ss_pred             ccccchhhHHHHHHHhhcc-------C---------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------Q---------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+||.+..++.+...+.+       .         ..+.|.++|++|+|||++|+.++...
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            4578999988877655411       0         13568999999999999999998765

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.58  E-value=0.21  Score=53.39  Aligned_cols=94  Identities=11%  Similarity=0.027  Sum_probs=57.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  242 (863)
                      .-+++-|+|.+|+|||+|+.+++-....   ..+.-..++|++....|+.+++.+ +++.++.....       ....+.
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~  203 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTY  203 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCH
Confidence            4578889999999999999987633200   112224789999999999888754 56666554211       012233


Q ss_pred             hhHHH---HHHHHhc-cCcEEEEEccccc
Q 038405          243 YDRAV---EILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~~---~l~~~l~-~k~~LlVlDdv~~  267 (863)
                      ++...   .+...+. .+--|||+|.+-.
T Consensus       204 e~~~~~l~~l~~~i~~~~~~LvVIDSita  232 (344)
T PLN03187        204 EHQYNLLLGLAAKMAEEPFRLLIVDSVIA  232 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEeCcHH
Confidence            33222   2222332 3455788888743

>PRK04040 adenylate kinase; Provisional

Probab=94.57  E-value=0.025  Score=55.15  Aligned_cols=24  Identities=38%  Similarity=0.594  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|+|++|+||||+++.+....
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998876

>PTZ00185 ATPase alpha subunit; Provisional

Probab=94.55  E-value=0.15  Score=56.19  Aligned_cols=94  Identities=12%  Similarity=0.054  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCChHHHHh-hhhhhcccc----ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC-CCcccc----cccChh
Q 038405          174 EQTIGLYGMGGVGKITLL-KKPNNKFLD----VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD-ISDYIW----NMKGEY  243 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~----~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~-~~~~~~----~~~~~~  243 (863)
                      -.-++|.|-.|+|||+|| -.+.+....    ..+.-+.++++-+++...-..-+.+.++.-+ ......    ......
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            356899999999999997 445554300    1124467889998887543332444444433 111100    011111


Q ss_pred             h------HHHHHHHHh--ccCcEEEEEccccc
Q 038405          244 D------RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       244 ~------~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      .      .+..+.+++  +++.+|+|+||+-.
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            1      223445555  47999999999864

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.55  E-value=0.17  Score=53.77  Aligned_cols=60  Identities=10%  Similarity=0.092  Sum_probs=41.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDIS  233 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~  233 (863)
                      ...++.|+|.+|+|||||+..++.....   ....-..++|++....+...++ .++++.++..
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~  157 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLN  157 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCC
Confidence            4678999999999999999988753200   1112246799998888887764 4455555543

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).

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.54  E-value=0.13  Score=56.37  Aligned_cols=91  Identities=20%  Similarity=0.294  Sum_probs=55.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccChhh--
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGEYD--  244 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~~--  244 (863)
                      ..-..++|+|..|+|||||.+.+++..     .-+.++++-+++.. .+.++....+..-+......    .+.....  
T Consensus       160 ~~Gq~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~  234 (439)
T PRK06936        160 GEGQRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERA  234 (439)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHH
Confidence            344679999999999999999998865     22567788777664 34454444333222111100    0111111  


Q ss_pred             ----HHHHHHHHh--ccCcEEEEEccccc
Q 038405          245 ----RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       245 ----~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                          .+..+.+++  ++|++|+++||+-.
T Consensus       235 ~a~~~a~tiAEyfrd~G~~Vll~~DslTR  263 (439)
T PRK06936        235 KAGFVATSIAEYFRDQGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence                123455655  57999999999854

>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=94.54  E-value=0.017  Score=33.91  Aligned_cols=21  Identities=43%  Similarity=0.648  Sum_probs=15.4

Q ss_pred             CccEEeccCCcCccccchhhhc
Q 038405          546 ALKVLDLSYNLDLTQLPAEMGA  567 (863)
Q Consensus       546 ~L~~L~Ls~~~~i~~lp~~i~~  567 (863)
                      +|++|||++| .++.+|.+|++
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            4778888888 67777776654

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 ....

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.53  E-value=0.096  Score=56.79  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998654

>PRK14527 adenylate kinase; Provisional

Probab=94.52  E-value=0.044  Score=53.78  Aligned_cols=26  Identities=19%  Similarity=0.291  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|+|++|+||||+|+.++.+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998776

>PRK00625 shikimate kinase; Provisional

Probab=94.52  E-value=0.026  Score=54.06  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.++||+|+||||+++.+..+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998876

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=94.52  E-value=0.022  Score=55.10  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|.+|+||||+|+.++...
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.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=94.47  E-value=0.052  Score=52.30  Aligned_cols=26  Identities=35%  Similarity=0.461  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|.|||||++.++...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998764

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PTZ00035 Rad51 protein; Provisional

Probab=94.47  E-value=0.31  Score=52.20  Aligned_cols=94  Identities=12%  Similarity=0.062  Sum_probs=54.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  242 (863)
                      .-.++.|+|.+|+|||||+..++-....   ....-..++|++....++.+++ .++++.++.....       ....+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCH
Confidence            4678999999999999999988754310   0112246779998877777764 3445555443210       011223


Q ss_pred             hhHHHHH---HHHh-ccCcEEEEEccccc
Q 038405          243 YDRAVEI---LISL-RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~~~l---~~~l-~~k~~LlVlDdv~~  267 (863)
                      ++....+   ...+ .++--|||+|.+..
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            3333322   2222 23456888888753

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.46  E-value=0.14  Score=56.64  Aligned_cols=86  Identities=21%  Similarity=0.201  Sum_probs=48.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      .+++.++|++|+||||++..++... .....-..+..|+... +..  .+-+....+.++.+..  ...+..+....+.+
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~-~~~~~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~--~~~~~~~l~~~l~~  296 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY-ALLYGKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVE--VVYDPKELAKALEQ  296 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceE--ccCCHHhHHHHHHH
Confidence            3689999999999999998887765 1012224566676543 222  1223333444554432  22334444444433


Q ss_pred             HhccCcEEEEEccc
Q 038405          252 SLRRKKFVLLLDDV  265 (863)
Q Consensus       252 ~l~~k~~LlVlDdv  265 (863)
                       +. ..=+||+|..
T Consensus       297 -~~-~~DlVlIDt~  308 (424)
T PRK05703        297 -LR-DCDVILIDTA  308 (424)
T ss_pred             -hC-CCCEEEEeCC
Confidence             33 3457788865

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.45  E-value=0.023  Score=56.18  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987764

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=94.44  E-value=0.14  Score=49.30  Aligned_cols=27  Identities=30%  Similarity=0.505  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||++.+..-.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            345689999999999999999988754

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=94.43  E-value=0.13  Score=56.37  Aligned_cols=95  Identities=13%  Similarity=0.075  Sum_probs=58.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc-cCCCC---------EEEEEEeCCCCCHHHHHHHHHHHcC-CCcccc----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV-NHCFD---------LVIFVAVSKEGNLEKIQEVIRKKLD-ISDYIW----  237 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F~---------~~~wv~~~~~~~~~~~~~~i~~~l~-~~~~~~----  237 (863)
                      .-+-++|.|-+|+|||||+..+.+..... ....|         .++++-+++.....+.+...+..-+ ......    
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            34568999999999999999988775100 00022         6778888887666666666665554 221100    


Q ss_pred             cccCh------hhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          238 NMKGE------YDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       238 ~~~~~------~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      .....      ...+..+.++++   ++++|+++||+-.
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence            01111      112334667765   5999999999854

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.41  E-value=0.061  Score=52.54  Aligned_cols=43  Identities=30%  Similarity=0.482  Sum_probs=29.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .|+|+|-||+||||+|..+...... ++.| .++-|....++++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~-~~~~-~VLvVDaDpd~nL~   44 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLS-KGGY-NVLVVDADPDSNLP   44 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHh-cCCc-eEEEEeCCCCCChH
Confidence            6899999999999999986655522 2223 45556666666544

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.39  E-value=0.12  Score=52.79  Aligned_cols=90  Identities=13%  Similarity=0.133  Sum_probs=51.7

Q ss_pred             ceEEEEEcCCCChHHHHh-hhhhhccccccCCCCEE-EEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccChhh--
Q 038405          174 EQTIGLYGMGGVGKITLL-KKPNNKFLDVNHCFDLV-IFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGEYD--  244 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~-~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~~--  244 (863)
                      -+-++|+|..|+|||+|| ..+.+..     .-+.+ +++-+++.. .+.++.+.+.+.-.......    .......  
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            356899999999999996 5555432     12333 677776654 45566666654321111000    0111111  


Q ss_pred             ----HHHHHHHHh--ccCcEEEEEcccccc
Q 038405          245 ----RAVEILISL--RRKKFVLLLDDVWER  268 (863)
Q Consensus       245 ----~~~~l~~~l--~~k~~LlVlDdv~~~  268 (863)
                          .+..+.+++  +++.+|+|+||+-..
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~  173 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDLSKQ  173 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcChHHH
Confidence                123444544  479999999998653

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.37  E-value=0.14  Score=57.24  Aligned_cols=85  Identities=18%  Similarity=0.227  Sum_probs=50.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-.++.|.|.+|+|||||+.+++....   ..-..++|++..+.  ..++... ++.++......   ...+.+    .+
T Consensus        79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~Ees--~~qi~~r-a~rlg~~~~~l~~~~e~~l~----~i  148 (446)
T PRK11823         79 PGSVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSGEES--ASQIKLR-AERLGLPSDNLYLLAETNLE----AI  148 (446)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcccc--HHHHHHH-HHHcCCChhcEEEeCCCCHH----HH
Confidence            356899999999999999999988762   22246788876543  3333322 45555432111   112222    33


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      .+.++ .+.-++|+|.+..
T Consensus       149 ~~~i~~~~~~lVVIDSIq~  167 (446)
T PRK11823        149 LATIEEEKPDLVVIDSIQT  167 (446)
T ss_pred             HHHHHhhCCCEEEEechhh
Confidence            33332 3556889998853

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=94.37  E-value=0.024  Score=49.53  Aligned_cols=22  Identities=41%  Similarity=0.626  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |-|+|.+|+|||++|+.++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999988776

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

>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=94.36  E-value=0.03  Score=54.16  Aligned_cols=23  Identities=39%  Similarity=0.657  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=94.36  E-value=0.099  Score=50.36  Aligned_cols=26  Identities=23%  Similarity=0.348  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|.|||||.+.++...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            44689999999999999999998764

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.35  E-value=0.16  Score=47.40  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||.|+|.+|+||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.33  E-value=0.05  Score=53.57  Aligned_cols=27  Identities=30%  Similarity=0.400  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.++||+|.+|+|||||++.+.--.
T Consensus        31 ~~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          31 ERGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            345689999999999999999998765

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=94.32  E-value=0.15  Score=56.00  Aligned_cols=93  Identities=16%  Similarity=0.264  Sum_probs=57.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccCh-----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGE-----  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~-----  242 (863)
                      .-.-++|.|.+|+|||||+..+.....  ..+=+.++++-+++.. .+.++.+++...-.......    .....     
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~--~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHH--hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            345689999999999999999887651  2223467787776653 45666666654322111000    01111     


Q ss_pred             -hhHHHHHHHHh---ccCcEEEEEccccc
Q 038405          243 -YDRAVEILISL---RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 -~~~~~~l~~~l---~~k~~LlVlDdv~~  267 (863)
                       ...+..+.+++   +++++||++||+-.
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhH
Confidence             11234566776   45899999999954

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.31  E-value=0.051  Score=57.01  Aligned_cols=46  Identities=15%  Similarity=0.281  Sum_probs=40.9

Q ss_pred             ccccchhhHHHHHHHhhcc------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.++.++++++.+..      ..-+|+.++|+.|.||||||..+.+-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999953      457899999999999999999998776

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.31  E-value=0.026  Score=55.06  Aligned_cols=23  Identities=30%  Similarity=0.265  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||.|+|++|+||||+|+.++.+.
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999998875

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.28  E-value=0.23  Score=50.21  Aligned_cols=49  Identities=18%  Similarity=0.188  Sum_probs=32.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  226 (863)
                      ...++.|.|.+|+||||+|.++.....  +.. ..++|++...  +..++.+.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~--~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL--QNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEeCCC--CHHHHHHHH
Confidence            346899999999999999876665441  111 4567776433  445555555

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.28  E-value=0.21  Score=51.64  Aligned_cols=41  Identities=20%  Similarity=0.240  Sum_probs=31.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      .-+++.|.|.+|+||||+|.+++....   ..-..++|++...+
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge~vlyis~Ee~   75 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA---SRGNPVLFVTVESP   75 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecCC
Confidence            457899999999999999999876541   22346788887643

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.27  E-value=0.061  Score=61.60  Aligned_cols=45  Identities=18%  Similarity=0.348  Sum_probs=38.3

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ++++|.+..++.+...+......-|.|+|.+|+|||++|+.+++.
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999988876655566789999999999999999864

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=94.24  E-value=0.24  Score=49.81  Aligned_cols=49  Identities=12%  Similarity=0.083  Sum_probs=34.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVI  226 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  226 (863)
                      .-.++.|.|.+|+|||++|.++.....   ..-..++|++...+  ..++...+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a---~~Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAM---KSGRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEEeCC--HHHHHHHH
Confidence            446899999999999999999877652   22345777766554  44554443

>PRK15453 phosphoribulokinase; Provisional

Probab=94.24  E-value=0.17  Score=51.77  Aligned_cols=27  Identities=22%  Similarity=0.367  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|.|.+|+||||+|+.+...+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998765

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.23  E-value=0.051  Score=48.83  Aligned_cols=68  Identities=18%  Similarity=0.153  Sum_probs=38.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      +-|.|.|.+|+||||+|.+++...     .   .-|+++|+-..-..+....=+....     ..-+.+.+.+.|-..+.
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~-----~---~~~i~isd~vkEn~l~~gyDE~y~c-----~i~DEdkv~D~Le~~m~   74 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKT-----G---LEYIEISDLVKENNLYEGYDEEYKC-----HILDEDKVLDELEPLMI   74 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHh-----C---CceEehhhHHhhhcchhcccccccC-----ccccHHHHHHHHHHHHh
Confidence            458899999999999999998654     1   2466665442222222221111111     22355556666665554


Q ss_pred             c
Q 038405          255 R  255 (863)
Q Consensus       255 ~  255 (863)
                      +
T Consensus        75 ~   75 (176)
T KOG3347|consen   75 E   75 (176)
T ss_pred             c
Confidence            4

>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=94.21  E-value=0.058  Score=55.93  Aligned_cols=89  Identities=24%  Similarity=0.338  Sum_probs=47.7

Q ss_pred             HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccCh
Q 038405          163 DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGE  242 (863)
Q Consensus       163 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~  242 (863)
                      ..+++.+...+ +-+.++|+.|+|||++++.......  ...| ...-++.+...+...+++.+-..+.....  ..-.+
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~--~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~--~~~gP   96 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLD--SDKY-LVITINFSAQTTSNQLQKIIESKLEKRRG--RVYGP   96 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCST--TCCE-EEEEEES-TTHHHHHHHHCCCTTECECTT--EEEEE
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccCC--cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCCC--CCCCC
Confidence            44555555544 4568999999999999999886651  1222 23445555544444443322111111000  00000


Q ss_pred             hhHHHHHHHHhccCcEEEEEccccc
Q 038405          243 YDRAVEILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~~~l~~~l~~k~~LlVlDdv~~  267 (863)
                                -.+|+.++.+||+.-
T Consensus        97 ----------~~~k~lv~fiDDlN~  111 (272)
T PF12775_consen   97 ----------PGGKKLVLFIDDLNM  111 (272)
T ss_dssp             ----------ESSSEEEEEEETTT-
T ss_pred             ----------CCCcEEEEEecccCC
Confidence                      136888999999853

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=94.21  E-value=0.16  Score=55.88  Aligned_cols=91  Identities=20%  Similarity=0.255  Sum_probs=53.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc--cc--cC-----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW--NM--KG-----  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~--~~-----  241 (863)
                      ..-..++|+|..|+|||||++.+....     ..+.+++..+.... ...++...+...-+......  ..  ..     
T Consensus       166 ~~GqrigI~G~sG~GKSTLl~~I~g~~-----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~  240 (451)
T PRK05688        166 GRGQRLGLFAGTGVGKSVLLGMMTRFT-----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRL  240 (451)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC-----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHH
Confidence            344679999999999999999987653     12344444454443 45555555554433221100  00  11     


Q ss_pred             -hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 -EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 -~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ....+..+.+++  +++++||++||+-.
T Consensus       241 ~a~~~a~aiAEyfrd~G~~VLl~~DslTR  269 (451)
T PRK05688        241 RAAMYCTRIAEYFRDKGKNVLLLMDSLTR  269 (451)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEecchhH
Confidence             111223455665  57999999999854

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.21  E-value=0.036  Score=53.52  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.|+|++|+||||+|+.++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999999876

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.20  E-value=0.076  Score=61.49  Aligned_cols=75  Identities=11%  Similarity=0.156  Sum_probs=57.3

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      +.++|.++.++.+...+...  +.+.++|.+|+||||+|+.+.....  ...++..+|..- ...+...+++.+...++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~n-p~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPN-PEDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeC-CCcchHHHHHHHHHhcCH
Confidence            56889999988888877654  4688999999999999999998762  344677788665 334677777788776654

>PRK05439 pantothenate kinase; Provisional

Probab=94.19  E-value=0.25  Score=51.79  Aligned_cols=27  Identities=26%  Similarity=0.254  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...-+|||.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999988755

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.16  E-value=0.24  Score=54.28  Aligned_cols=86  Identities=27%  Similarity=0.296  Sum_probs=45.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ..+|+++|..|+||||++..++... ......+.+..+... .+.+  .+-+....+.++.+..  ...+..+.... ..
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~-~~~~~~~~v~~i~~d-~~rigalEQL~~~a~ilGvp~~--~v~~~~dl~~a-l~  265 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA-VIRHGADKVALLTTD-SYRIGGHEQLRIYGKLLGVSVR--SIKDIADLQLM-LH  265 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecC-CcchhHHHHHHHHHHHcCCcee--cCCCHHHHHHH-HH
Confidence            4789999999999999999887653 111222344444432 2332  2334455556665542  22333333322 22


Q ss_pred             HhccCcEEEEEccc
Q 038405          252 SLRRKKFVLLLDDV  265 (863)
Q Consensus       252 ~l~~k~~LlVlDdv  265 (863)
                      .++++ -++++|-.
T Consensus       266 ~l~~~-d~VLIDTa  278 (420)
T PRK14721        266 ELRGK-HMVLIDTV  278 (420)
T ss_pred             HhcCC-CEEEecCC
Confidence            34443 34556654

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.11  E-value=0.055  Score=54.89  Aligned_cols=62  Identities=21%  Similarity=0.183  Sum_probs=43.1

Q ss_pred             HHHHHhhc--cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          163 DEVWGCIE--DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       163 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      .+++..+.  ..+..+|||.|.+|+|||||.-.+...+ ..+++=-.++=|.-|.+++-..++.+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccccc
Confidence            44555553  3567799999999999999999888877 33344345666667777776555443

>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=94.11  E-value=0.052  Score=54.30  Aligned_cols=62  Identities=19%  Similarity=0.112  Sum_probs=37.1

Q ss_pred             HHHHHHHhhc--cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHH
Q 038405          161 KLDEVWGCIE--DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQ  223 (863)
Q Consensus       161 ~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  223 (863)
                      ...++++.+.  ..+..+|||.|++|+|||||+-.+....+ .+++=-.++=|.-|.+++-..++
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELR-ERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHh-hcCCceEEEEECCCCCCCCCccc
Confidence            3445555553  24678999999999999999999888773 23332355556666666655543

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=94.10  E-value=0.096  Score=56.63  Aligned_cols=75  Identities=20%  Similarity=0.257  Sum_probs=48.3

Q ss_pred             ccccchhhHHHHHHHhhcc--------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCC---CEEEEEEeC-
Q 038405          153 EKTVGADSKLDEVWGCIED--------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF---DLVIFVAVS-  214 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~-  214 (863)
                      ..++|.++.+..+..++..              -..+-|.++|++|+|||++|+.+....   ...|   +...|...+ 
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l---~~~fi~vD~t~f~e~Gy   91 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEVGY   91 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh---CChheeecchhhccCCc
Confidence            4578999888888877732              013578999999999999999998876   2333   222232221 


Q ss_pred             CCCCHHHHHHHHHHHc
Q 038405          215 KEGNLEKIQEVIRKKL  230 (863)
Q Consensus       215 ~~~~~~~~~~~i~~~l  230 (863)
                      ...+.+.+.+.+.+..
T Consensus        92 vG~d~e~~ir~L~~~A  107 (443)
T PRK05201         92 VGRDVESIIRDLVEIA  107 (443)
T ss_pred             ccCCHHHHHHHHHHHH
Confidence            1235556666665543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=94.06  E-value=0.038  Score=53.66  Aligned_cols=24  Identities=33%  Similarity=0.447  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|+|++|+||||+++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999988765

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.

>PRK06851 hypothetical protein; Provisional

Probab=94.05  E-value=0.53  Score=50.61  Aligned_cols=54  Identities=24%  Similarity=0.243  Sum_probs=38.9

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      |.-...+.+.    .+--+++.|.|.+|+|||||++.++....  ...++..++-|.+.+
T Consensus       201 G~~s~~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a~--~~G~~v~~~hC~~dP  254 (367)
T PRK06851        201 GAVDFVPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAAE--ERGFDVEVYHCGFDP  254 (367)
T ss_pred             cHHhhHHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHHH--hCCCeEEEEeCCCCC
Confidence            5444444444    33457899999999999999999999873  455666666665555

>TIGR00416 sms DNA repair protein RadA

Probab=94.04  E-value=0.18  Score=56.47  Aligned_cols=85  Identities=18%  Similarity=0.192  Sum_probs=48.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-.++.|.|.+|+|||||+.+++....   ..-..++|++..+.  ..++.. -++.++......   ...+.+    .+
T Consensus        93 ~GsvilI~G~pGsGKTTL~lq~a~~~a---~~g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~----~I  162 (454)
T TIGR00416        93 PGSLILIGGDPGIGKSTLLLQVACQLA---KNQMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWE----QI  162 (454)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH---hcCCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHH----HH
Confidence            457899999999999999999977652   12235788876543  333322 133444332111   112222    33


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      .+.++ .+.-++|+|.+..
T Consensus       163 ~~~i~~~~~~~vVIDSIq~  181 (454)
T TIGR00416       163 CANIEEENPQACVIDSIQT  181 (454)
T ss_pred             HHHHHhcCCcEEEEecchh
Confidence            33333 2556788888754

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)).

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.03  E-value=0.04  Score=50.65  Aligned_cols=23  Identities=52%  Similarity=0.642  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998875

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.01  E-value=0.045  Score=51.98  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+++|+|..|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45789999999999999999999876

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

Probab=94.00  E-value=0.0035  Score=60.39  Aligned_cols=82  Identities=16%  Similarity=0.062  Sum_probs=59.2

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +...++|+++.|.+..+... |+.++.|.-||++.+ .+..+|..++.+..++.+++..|+.+.+|.+.+++++++++++
T Consensus        41 ~kr~tvld~~s~r~vn~~~n-~s~~t~~~rl~~skn-q~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~  118 (326)
T KOG0473|consen   41 FKRVTVLDLSSNRLVNLGKN-FSILTRLVRLDLSKN-QIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQ  118 (326)
T ss_pred             cceeeeehhhhhHHHhhccc-hHHHHHHHHHhccHh-hHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchhhh
Confidence            56677777777755555444 556667777777777 7777777777777777777777777777777777777777777


Q ss_pred             CCCC
Q 038405          600 DGMR  603 (863)
Q Consensus       600 ~~~~  603 (863)
                      .++.
T Consensus       119 k~~~  122 (326)
T KOG0473|consen  119 KKTE  122 (326)
T ss_pred             ccCc
Confidence            7765

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=93.99  E-value=0.11  Score=49.07  Aligned_cols=112  Identities=22%  Similarity=0.308  Sum_probs=58.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC--CHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG--NLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      .-.+++|+|..|.|||||++.+....    ......+++......  .....    ...++...   +...-+...-.+.
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~~~~~~----~~~i~~~~---qlS~G~~~r~~l~   92 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKLPLEEL----RRRIGYVP---QLSGGQRQRVALA   92 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccCCHHHH----HhceEEEe---eCCHHHHHHHHHH
Confidence            34689999999999999999998765    223455554322111  11111    11111110   1111223333455


Q ss_pred             HHhccCcEEEEEcccccccc---cccccccCCC-CCCCeEEEEeecchh
Q 038405          251 ISLRRKKFVLLLDDVWERLD---LSKTGVSLSD-CQNGSKIVFTTRSEE  295 (863)
Q Consensus       251 ~~l~~k~~LlVlDdv~~~~~---~~~~~~~l~~-~~~gs~iivTTr~~~  295 (863)
                      ..+....=++++|+.-...|   ...+...+.. ...+..+|++|.+..
T Consensus        93 ~~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  141 (157)
T cd00267          93 RALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPE  141 (157)
T ss_pred             HHHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            56666778899999764322   1122221211 112456888887644

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=93.99  E-value=0.063  Score=52.31  Aligned_cols=37  Identities=32%  Similarity=0.386  Sum_probs=30.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV  213 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  213 (863)
                      .++|.|+|+.|+|||||++.+....   ...|..++..+-
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeecc
Confidence            4789999999999999999999887   567765555543

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 ....

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=93.98  E-value=0.15  Score=54.25  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=19.9

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+.|++|.||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999776

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.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.96  E-value=0.039  Score=51.22  Aligned_cols=20  Identities=40%  Similarity=0.494  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHhhhhh
Q 038405          176 TIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~  195 (863)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.95  E-value=0.047  Score=52.75  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|+|++|+||||+|+.++...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999876

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.94  E-value=0.17  Score=59.39  Aligned_cols=87  Identities=15%  Similarity=0.116  Sum_probs=57.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|.+|+||||||.+++...   ...-..++|+.....++.     ..+++++......   ...+.++....+
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a---~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            46788999999999999998866554   122356799988777764     3666776653211   223444555555


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ...++ ++--|||+|.+..
T Consensus       131 ~~lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVAA  149 (790)
T ss_pred             HHHhhcCCCeEEEEcchhh
Confidence            55554 3667899999863

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

Probab=93.94  E-value=0.031  Score=30.41  Aligned_cols=16  Identities=56%  Similarity=0.895  Sum_probs=5.8

Q ss_pred             ccceeeccCCCccccc
Q 038405          570 NLRCLNLSNTSIEELP  585 (863)
Q Consensus       570 ~L~~L~L~~~~i~~lP  585 (863)
                      +|+.|++++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            3445555555444443

...

>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=93.93  E-value=0.089  Score=54.30  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|+|.+|+||||+|+.+....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999887

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=93.92  E-value=0.18  Score=55.65  Aligned_cols=90  Identities=12%  Similarity=0.191  Sum_probs=52.0

Q ss_pred             CceEEEEEcCCCChHHHHhhh-hhhccccccCCCCE-EEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccCh-hh
Q 038405          173 SEQTIGLYGMGGVGKITLLKK-PNNKFLDVNHCFDL-VIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGE-YD  244 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~-v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~-~~  244 (863)
                      .-.-++|.|-.|+||||||.. +.+..     .-+. ++++-+++.. .+.++.+.+.+.=.......    ..... ..
T Consensus       140 rGQR~~I~g~~g~GKt~Lal~~I~~q~-----~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r  214 (485)
T CHL00059        140 RGQRELIIGDRQTGKTAVATDTILNQK-----GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQ  214 (485)
T ss_pred             cCCEEEeecCCCCCHHHHHHHHHHhcc-----cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHH
Confidence            345689999999999999654 44432     2243 4888887654 45666666654322111100    01111 11


Q ss_pred             -----HHHHHHHHh--ccCcEEEEEccccc
Q 038405          245 -----RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       245 -----~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                           .+..+.+++  +++++|+|+||+-.
T Consensus       215 ~~ap~~a~aiAEyfr~~G~~VLlv~DdlTr  244 (485)
T CHL00059        215 YLAPYTGAALAEYFMYRGRHTLIIYDDLSK  244 (485)
T ss_pred             HHHHHHHhhHHHHHHHcCCCEEEEEcChhH
Confidence                 122344554  47999999999864

>PRK09099 type III secretion system ATPase; Provisional

Probab=93.91  E-value=0.2  Score=55.12  Aligned_cols=92  Identities=18%  Similarity=0.185  Sum_probs=53.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc--cccC--h-----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW--NMKG--E-----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~--~-----  242 (863)
                      ..-..++|.|..|+|||||++.++...   .. -..+++..--+...+.++.+.+...-+......  ...+  .     
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~---~~-d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~  236 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGT---QC-DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAK  236 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC---CC-CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHH
Confidence            445789999999999999999998754   11 123443333334445555555554422221100  0111  1     


Q ss_pred             -hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 -YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 -~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ...+..+.+++  +++++|+++||+-.
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        237 AAYVATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence             11223455665  47899999999854

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.90  E-value=0.042  Score=53.10  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998765

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=93.90  E-value=0.3  Score=55.45  Aligned_cols=89  Identities=17%  Similarity=0.051  Sum_probs=55.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------------cc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------------WN  238 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------~~  238 (863)
                      ..-.++.|.|.+|+|||||+.++.....   ..-+.++|++.-+.  ..++.... +.++.....             +.
T Consensus       261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge~~~y~s~eEs--~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~  334 (484)
T TIGR02655       261 FKDSIILATGATGTGKTLLVSKFLENAC---ANKERAILFAYEES--RAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPE  334 (484)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeCC--HHHHHHHH-HHcCCChHHHhhCCcEEEEEcccc
Confidence            3457899999999999999999888762   23356788776554  44444443 455543211             01


Q ss_pred             ccChhhHHHHHHHHhcc-CcEEEEEcccc
Q 038405          239 MKGEYDRAVEILISLRR-KKFVLLLDDVW  266 (863)
Q Consensus       239 ~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  266 (863)
                      ....++....+.+.+.. +.-.+|+|.+.
T Consensus       335 ~~~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       335 SAGLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             cCChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            12335566666666644 44567888774

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.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.88  E-value=0.081  Score=55.74  Aligned_cols=49  Identities=22%  Similarity=0.342  Sum_probs=35.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      .+++.+.|.||+||||+|.+.+-..   ......++-|+.....++..++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~l---A~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKL---AESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHH---HHcCCcEEEEEeCCCCchHhhhcc
Confidence            4789999999999999999866655   222244777777666666655543

>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=93.86  E-value=0.2  Score=50.74  Aligned_cols=78  Identities=12%  Similarity=-0.095  Sum_probs=42.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC--CHHHHHHHHHHHc--CCCccc--ccccChhhHHHHH
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG--NLEKIQEVIRKKL--DISDYI--WNMKGEYDRAVEI  249 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l--~~~~~~--~~~~~~~~~~~~l  249 (863)
                      +|+|.|.+|+||||+|+.+...+. ..+  ..++.++...-+  +-......+.++.  +..-+.  ++..+.+.+...+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~-~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA-REG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH-hcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            589999999999999999887762 111  123444432222  2222222222221  111111  2455666677777


Q ss_pred             HHHhccC
Q 038405          250 LISLRRK  256 (863)
Q Consensus       250 ~~~l~~k  256 (863)
                      +...+++
T Consensus        78 ~~L~~g~   84 (277)
T cd02029          78 RTYGETG   84 (277)
T ss_pred             HHHHcCC
Confidence            7666554

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.86  E-value=0.2  Score=55.80  Aligned_cols=87  Identities=22%  Similarity=0.295  Sum_probs=46.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      .+|++++|+.|+||||++..++.... .+..-..+..+... .+.+  .+-++...+.++.+..  ...+..+....+ .
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~-~~~G~~kV~LI~~D-t~RigA~EQLr~~AeilGVpv~--~~~~~~Dl~~aL-~  330 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV-MRHGASKVALLTTD-SYRIGGHEQLRIYGKILGVPVH--AVKDAADLRLAL-S  330 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH-HhcCCCeEEEEeCC-ccchhHHHHHHHHHHHhCCCee--ccCCchhHHHHH-H
Confidence            37999999999999999999887652 11111234555543 3332  2334444555555431  112222222222 2


Q ss_pred             HhccCcEEEEEcccc
Q 038405          252 SLRRKKFVLLLDDVW  266 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~  266 (863)
                      .++++ -.+++|-.-
T Consensus       331 ~L~d~-d~VLIDTaG  344 (484)
T PRK06995        331 ELRNK-HIVLIDTIG  344 (484)
T ss_pred             hccCC-CeEEeCCCC
Confidence            34444 366667653

>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=93.84  E-value=0.037  Score=51.65  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|.|.|..|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999765

>PRK13947 shikimate kinase; Provisional

Probab=93.83  E-value=0.042  Score=52.89  Aligned_cols=23  Identities=35%  Similarity=0.455  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.|+|++|+||||+|+.+++..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999876

>TIGR03263 guanyl_kin guanylate kinase

Probab=93.82  E-value=0.045  Score=53.18  Aligned_cols=24  Identities=38%  Similarity=0.344  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|+|+|+.|+||||||+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998864

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.

>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=93.81  E-value=0.075  Score=49.70  Aligned_cols=36  Identities=25%  Similarity=0.340  Sum_probs=29.6

Q ss_pred             hHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          160 SKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       160 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++++.+.+.+   +++.++|..|+|||||+..+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            445667777755   789999999999999999998764

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.80  E-value=0.038  Score=51.79  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|.|.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=93.78  E-value=0.054  Score=53.96  Aligned_cols=32  Identities=19%  Similarity=0.325  Sum_probs=27.6

Q ss_pred             HhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          167 GCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       167 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+.+.++++|+++|..|+|||||..++....
T Consensus        15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HHhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34556789999999999999999999998765

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>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=93.77  E-value=0.075  Score=50.65  Aligned_cols=44  Identities=18%  Similarity=0.262  Sum_probs=32.4

Q ss_pred             ccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          155 TVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +||....+.++++.+..  ....-|.|+|-.|+||+.+|+.+++.-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            46888888888877743  222456699999999999999999865

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 ....

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=93.70  E-value=0.25  Score=54.23  Aligned_cols=93  Identities=18%  Similarity=0.149  Sum_probs=53.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc----cccC------
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW----NMKG------  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~----~~~~------  241 (863)
                      ..-..++|+|..|+|||||++.++...   +. ...++...-.+...+.+..+..+..-+......    ....      
T Consensus       154 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~---~~-~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~r  229 (432)
T PRK06793        154 GIGQKIGIFAGSGVGKSTLLGMIAKNA---KA-DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLR  229 (432)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccC---CC-CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHH
Confidence            345678999999999999999988765   11 223333322333566666665555433221100    0111      


Q ss_pred             hhhHHHHHHHHh--ccCcEEEEEcccccc
Q 038405          242 EYDRAVEILISL--RRKKFVLLLDDVWER  268 (863)
Q Consensus       242 ~~~~~~~l~~~l--~~k~~LlVlDdv~~~  268 (863)
                      ....+..+.+++  ++++.||++||+-..
T Consensus       230 a~~~a~~iAEyfr~~G~~VLlilDslTr~  258 (432)
T PRK06793        230 AAKLATSIAEYFRDQGNNVLLMMDSVTRF  258 (432)
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEecchHHH
Confidence            111223445555  479999999998653

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.69  E-value=0.075  Score=55.08  Aligned_cols=42  Identities=14%  Similarity=0.116  Sum_probs=36.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      +.-+++.|+|.+|+|||++|.++....   ......++||+..+.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~   62 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES   62 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC
Confidence            456899999999999999999998887   345788999998776

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=93.68  E-value=0.16  Score=59.00  Aligned_cols=77  Identities=12%  Similarity=0.124  Sum_probs=52.4

Q ss_pred             CCccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHc
Q 038405          151 ATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       151 ~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  230 (863)
                      ..++++|.++.++.+...+....  -+.++|++|+||||+|+.+.+...  ...|...+++.-.. .+...+++.+...+
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~n~~-~~~~~~~~~v~~~~   90 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYPNPE-DPNMPRIVEVPAGE   90 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEeCCC-CCchHHHHHHHHhh
Confidence            33668899998888887776643  455999999999999999998772  23344444433322 24455577777666


Q ss_pred             CC
Q 038405          231 DI  232 (863)
Q Consensus       231 ~~  232 (863)
                      +.
T Consensus        91 g~   92 (608)
T TIGR00764        91 GR   92 (608)
T ss_pred             ch
Confidence            54

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=93.65  E-value=0.2  Score=54.85  Aligned_cols=46  Identities=22%  Similarity=0.210  Sum_probs=35.3

Q ss_pred             ccccchhhHHHHHHHhhc-------c----C-------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE-------D----Q-------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~-------~----~-------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.++.++.+...+.       .    .       ....|.++|++|+|||++|+.++...
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            456899998888766551       1    1       12568999999999999999998765

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK13949 shikimate kinase; Provisional

Probab=93.64  E-value=0.05  Score=52.03  Aligned_cols=23  Identities=39%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.|+|+.|+||||+++.++...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=93.63  E-value=0.092  Score=56.03  Aligned_cols=46  Identities=20%  Similarity=0.161  Sum_probs=38.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+||.++.+..+.-.+.++...-+.|.|..|+|||||++.+..-.
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4578999999888777777666778899999999999999987543

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=93.62  E-value=0.16  Score=60.70  Aligned_cols=46  Identities=24%  Similarity=0.302  Sum_probs=37.2

Q ss_pred             ccccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|+...+.++.+.+..  ....-|.|+|..|+|||++|+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            3588999888888776643  334568899999999999999998865

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=93.61  E-value=0.11  Score=59.38  Aligned_cols=90  Identities=19%  Similarity=0.147  Sum_probs=52.8

Q ss_pred             ccchhhHHHHHHHhhc---c----------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH
Q 038405          155 TVGADSKLDEVWGCIE---D----------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~---~----------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~  221 (863)
                      ..|.+...+.+.+.+.   .          ...+.+-++|++|.|||.||+++++..   ...|-.+..     .     
T Consensus       244 iggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~-----~-----  310 (494)
T COG0464         244 IGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKG-----S-----  310 (494)
T ss_pred             hhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeC-----H-----
Confidence            4466666555554441   1          244578999999999999999999965   344433221     1     


Q ss_pred             HHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccc
Q 038405          222 IQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  267 (863)
                         .+....       -..........+...-+.....|.+|.++.
T Consensus       311 ---~l~sk~-------vGesek~ir~~F~~A~~~~p~iiFiDEiDs  346 (494)
T COG0464         311 ---ELLSKW-------VGESEKNIRELFEKARKLAPSIIFIDEIDS  346 (494)
T ss_pred             ---HHhccc-------cchHHHHHHHHHHHHHcCCCcEEEEEchhh
Confidence               111111       112222233333344457889999999975

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.60  E-value=0.41  Score=56.17  Aligned_cols=87  Identities=20%  Similarity=0.223  Sum_probs=51.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC--HHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN--LEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      .+||+++|+.|+||||.+..++.... ....-..+..++.. .+.  ..+-++...+.++.+..  ...+..+....+. 
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~-~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~--~~~~~~~l~~al~-  259 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCV-AREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVH--AVKDAADLRFALA-  259 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHH-HHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCcc--ccCCHHHHHHHHH-
Confidence            47999999999999999988887651 11112345555543 333  34455666666766542  2334555443333 


Q ss_pred             HhccCcEEEEEcccc
Q 038405          252 SLRRKKFVLLLDDVW  266 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~  266 (863)
                      .++++. +|++|-.-
T Consensus       260 ~~~~~D-~VLIDTAG  273 (767)
T PRK14723        260 ALGDKH-LVLIDTVG  273 (767)
T ss_pred             HhcCCC-EEEEeCCC
Confidence            444443 66777664

>PRK00279 adk adenylate kinase; Reviewed

Probab=93.59  E-value=0.075  Score=53.31  Aligned_cols=23  Identities=35%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|+|++|+||||+|+.++...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998765

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=93.58  E-value=0.087  Score=51.94  Aligned_cols=42  Identities=21%  Similarity=0.388  Sum_probs=32.6

Q ss_pred             chhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          157 GADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |=.+.++++.+...-             +..+=|.++|++|.|||-+|++|+|+-
T Consensus       181 gckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt  235 (435)
T KOG0729|consen  181 GCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT  235 (435)
T ss_pred             chHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc
Confidence            667777777765521             334557899999999999999999986

>PRK00300 gmk guanylate kinase; Provisional

Probab=93.54  E-value=0.058  Score=53.69  Aligned_cols=26  Identities=35%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|++|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998865

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=93.54  E-value=2.2  Score=44.79  Aligned_cols=157  Identities=12%  Similarity=0.015  Sum_probs=82.0

Q ss_pred             HHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccc-------cccCCCCEEEEEEe-CCCCCHHHHHHHHHHHcCC
Q 038405          162 LDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFL-------DVNHCFDLVIFVAV-SKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       162 ~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~-------~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~l~~  232 (863)
                      ++.+.+.+..+. ..+..++|..|.||+++|..+.+...       ....+-+...++.. +....++++. ++.+.+..
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~   83 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYF   83 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhcc
Confidence            344555565544 45666999999999999998876641       01112112233321 1222333332 23333321


Q ss_pred             CcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchh-hh-----------c
Q 038405          233 SDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEE-VC-----------V  298 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~-v~-----------l  298 (863)
                      ..                 .-.+.+-++|+|++....  ....+...+.....++.+|++|.+.. +.           +
T Consensus        84 ~~-----------------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f  146 (299)
T PRK07132         84 SS-----------------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNV  146 (299)
T ss_pred             CC-----------------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEEC
Confidence            11                 001467788888886543  23344444444455677776665432 22           6


Q ss_pred             ccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       299 ~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      .++++++..+.+... +.        .++.+..++...+|.--|+..
T Consensus       147 ~~l~~~~l~~~l~~~-~~--------~~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        147 KEPDQQKILAKLLSK-NK--------EKEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCCHHHHHHHHHHc-CC--------ChhHHHHHHHHcCCHHHHHHH
Confidence            677888877666543 10        134466666666663334443

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=93.52  E-value=0.24  Score=46.97  Aligned_cols=118  Identities=17%  Similarity=0.114  Sum_probs=60.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC---CCHHHHHHHHH---HHcCCCcccccccChh----
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE---GNLEKIQEVIR---KKLDISDYIWNMKGEY----  243 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~---~~~~~~~~~i~---~~l~~~~~~~~~~~~~----  243 (863)
                      ...|-|++-.|.||||.|..++-+..  ...+ .++.+.+-+.   ..-...+....   .+.+.. ..+...+.+    
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~--~~g~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g-~~~~~~~~~~~~~   80 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRAL--GHGK-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTG-FTWETQNREADTA   80 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHH--HCCC-eEEEEEEecCCcccChHHHHHhcCcEEEECCCC-CeecCCCcHHHHH
Confidence            35778888899999999998887762  2222 3443333332   23333333320   001110 001111111    


Q ss_pred             ---hHHHHHHHHhcc-CcEEEEEccccccc-----ccccccccCCCCCCCeEEEEeecchh
Q 038405          244 ---DRAVEILISLRR-KKFVLLLDDVWERL-----DLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       244 ---~~~~~l~~~l~~-k~~LlVlDdv~~~~-----~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                         +.....++.+.. +-=|+|||.+-...     +.+++...+.....+..||+|-|+..
T Consensus        81 ~~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        81 IAKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence               112233344433 45599999986432     22334444444455678999999853

Alternate name: corrinoid adenosyltransferase.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=93.49  E-value=0.25  Score=54.15  Aligned_cols=91  Identities=22%  Similarity=0.266  Sum_probs=52.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccCh----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGE----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~----  242 (863)
                      ..-..++|+|..|.|||||++.+.+..   .  .+..+++.+.+.. .+.++.......=.......    .....    
T Consensus       135 ~~Gq~~~I~G~sG~GKTtLl~~I~~~~---~--~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~  209 (411)
T TIGR03496       135 GRGQRMGIFAGSGVGKSTLLGMMARYT---E--ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRL  209 (411)
T ss_pred             ecCcEEEEECCCCCCHHHHHHHHhcCC---C--CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHH
Confidence            344679999999999999999888754   1  2344455555543 34455554443321111000    01111    


Q ss_pred             --hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  +++++|+++||+-.
T Consensus       210 ~a~~~a~tiAEyfr~~G~~Vll~~Dsltr  238 (411)
T TIGR03496       210 RAAFYATAIAEYFRDQGKDVLLLMDSLTR  238 (411)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEeChHH
Confidence              11223445555  57999999999854

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.

>PRK14530 adenylate kinase; Provisional

Probab=93.49  E-value=0.052  Score=54.47  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|+|++|+||||+|+.++...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998776

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=93.48  E-value=0.23  Score=55.21  Aligned_cols=90  Identities=16%  Similarity=0.151  Sum_probs=54.8

Q ss_pred             CceEEEEEcCCCChHHHHhh-hhhhccccccCCCCE-EEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccCh---
Q 038405          173 SEQTIGLYGMGGVGKITLLK-KPNNKFLDVNHCFDL-VIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKGE---  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~---  242 (863)
                      .-.-++|.|-.|+||||||. .+.+..     .-+. ++++-+++.. .+.++.+.+.+.=.......    .....   
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~q~-----~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r  235 (497)
T TIGR03324       161 RGQRELILGDRQTGKTAIAIDTILNQK-----GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQ  235 (497)
T ss_pred             cCCEEEeecCCCCCHHHHHHHHHHHhc-----CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHH
Confidence            34568999999999999974 666653     2243 7888888764 45566666655422211100    01111   


Q ss_pred             ---hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 ---YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 ---~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                         .-.+..+.+++  +++.+|||+||+-.
T Consensus       236 ~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr  265 (497)
T TIGR03324       236 YIAPYAATSIGEHFMEQGRDVLIVYDDLTQ  265 (497)
T ss_pred             HHHHHHHHHHHHHHHhCCCCEEEEEcChhH
Confidence               11223455666  57999999999864

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, 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 alpha subunit of this apparent second ATP synthase.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=93.47  E-value=0.055  Score=53.97  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      .+++.|+|+.|.||||+.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999998873

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

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=93.46  E-value=0.25  Score=54.70  Aligned_cols=92  Identities=17%  Similarity=0.130  Sum_probs=50.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc-c-c--cccC------
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY-I-W--NMKG------  241 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-~-~--~~~~------  241 (863)
                      ..-..++|+|..|+|||||++.+....   .. -..++++.--+..++.++....+..-+.... . .  ....      
T Consensus       156 ~~Gq~i~I~G~sG~GKStLl~~I~~~~---~~-~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~  231 (438)
T PRK07721        156 GKGQRVGIFAGSGVGKSTLMGMIARNT---SA-DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIK  231 (438)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccc---CC-CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHH
Confidence            456789999999999999999888764   11 1234443322333444443332211111000 0 0  0111      


Q ss_pred             hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ....+..+.+++  +++++||++||+-.
T Consensus       232 ~~~~a~~iAEyfr~~g~~Vll~~Dsltr  259 (438)
T PRK07721        232 GAYTATAIAEYFRDQGLNVMLMMDSVTR  259 (438)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeChHH
Confidence            112233455665  47999999999854

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.46  E-value=0.25  Score=54.69  Aligned_cols=93  Identities=12%  Similarity=0.052  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCC--CEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----cccC-----
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF--DLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----NMKG-----  241 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~-----  241 (863)
                      -.-++|.|-.|+|||||+..+.+.. ...+.+  ..++++-+++.. .+.++.+.+...=.......    .+..     
T Consensus       141 GQR~gIfgg~G~GKs~L~~~ia~~~-~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~  219 (458)
T TIGR01041       141 GQKLPIFSGSGLPHNELAAQIARQA-TVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERI  219 (458)
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHhh-cccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHH
Confidence            3568999999999999999988765 211111  156777776654 45566666654322211100    0111     


Q ss_pred             -hhhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          242 -EYDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       242 -~~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                       ....+..+.++++   ++++||++||+-.
T Consensus       220 ~a~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       220 VTPRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence             1112334667765   6899999999854

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=93.40  E-value=0.064  Score=52.59  Aligned_cols=25  Identities=20%  Similarity=0.155  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|.|.|.+|+||||+|+.++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998875

>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=93.39  E-value=0.061  Score=48.02  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=20.1

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|..|+|||||.+.+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999998765

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.

>PRK06820 type III secretion system ATPase; Validated

Probab=93.38  E-value=0.23  Score=54.65  Aligned_cols=90  Identities=22%  Similarity=0.316  Sum_probs=49.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCccc-c---cccCh-----
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYI-W---NMKGE-----  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~-~---~~~~~-----  242 (863)
                      .-..++|+|..|+|||||++.++...     +.+.+++..+.+... +.++.......=...... .   .+...     
T Consensus       162 ~Gqri~I~G~sG~GKStLl~~I~~~~-----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~  236 (440)
T PRK06820        162 EGQRIGIFAAAGVGKSTLLGMLCADS-----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLK  236 (440)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhccC-----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHH
Confidence            34578999999999999999887654     234555555655522 222222222110000000 0   01111     


Q ss_pred             -hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 -YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 -~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ...+..+.+++  +++++||++||+-.
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~Dsltr  264 (440)
T PRK06820        237 GLSTATTIAEYFRDRGKKVLLMADSLTR  264 (440)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccchhH
Confidence             11233455665  47999999999854

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=93.38  E-value=0.53  Score=46.51  Aligned_cols=52  Identities=25%  Similarity=0.345  Sum_probs=38.4

Q ss_pred             ccccCCcc---ccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          147 VDGMATEK---TVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       147 ~~~~~~~~---~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++.+|++.   +=|.++.++++++.+.-             ...+=+..+|++|.|||-+|++.+..-
T Consensus       162 vDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  162 VDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             eccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            34555543   44899999999988721             223447889999999999999988765

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=93.33  E-value=0.14  Score=50.45  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|+.|+||||+++.++...
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999887

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.31  E-value=0.39  Score=51.00  Aligned_cols=26  Identities=35%  Similarity=0.489  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998877

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=93.31  E-value=0.38  Score=50.20  Aligned_cols=52  Identities=17%  Similarity=0.146  Sum_probs=36.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      -.++.|.|.+|+||||++.+++....  ..+=..++|++...+  ..++...+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~~--~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEEP--VVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEcccC--HHHHHHHHHHH
Confidence            46888999999999999999887652  222346888876553  45555555443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=93.29  E-value=0.39  Score=53.02  Aligned_cols=91  Identities=19%  Similarity=0.222  Sum_probs=52.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-CCCHHHHHHHHHHHcCCCcccc--c--ccCh----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-EGNLEKIQEVIRKKLDISDYIW--N--MKGE----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~--~--~~~~----  242 (863)
                      ..-..++|+|..|+|||||.+.+....   .  .+...++.+.. ...+.+...+....-.......  .  ....    
T Consensus       143 ~~Gq~~~I~G~sG~GKStLl~~I~~~~---~--~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~  217 (422)
T TIGR02546       143 GEGQRIGIFAGAGVGKSTLLGMIARGA---S--ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERL  217 (422)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhCCC---C--CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHH
Confidence            445678999999999999999988765   1  23344444444 3445555544443321111000  0  1111    


Q ss_pred             --hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  +++++|+++|++-.
T Consensus       218 ~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr  246 (422)
T TIGR02546       218 KAAYTATAIAEYFRDQGKRVLLMMDSLTR  246 (422)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCchH
Confidence              11223445555  46899999999854

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=93.26  E-value=0.24  Score=43.92  Aligned_cols=45  Identities=16%  Similarity=0.251  Sum_probs=31.8

Q ss_pred             cccchhhHHHHHHHhh----cc---CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCI----ED---QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L----~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|-.-..+.+++.+    .+   ...-|++..|.+|+|||.+|+.+++..
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            3556655555555555    32   345689999999999999888877763

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

>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=93.26  E-value=0.071  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~  195 (863)
                      .-..++|+|.+|.|||||++.+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34679999999999999999976

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

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=93.24  E-value=0.31  Score=54.04  Aligned_cols=93  Identities=20%  Similarity=0.322  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCc--------c-cccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISD--------Y-IWNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~--------~-~~~~~~~  242 (863)
                      .-.-++|.|-.|+|||||+..+.....  +.+=+.++++-+++.. .+.++...+...-....        . .....+.
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~--~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~  237 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  237 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHH--HhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCC
Confidence            345689999999999999998887631  1222678888887764 35666666655211110        0 0001111


Q ss_pred             --------hhHHHHHHHHhc--cC-cEEEEEccccc
Q 038405          243 --------YDRAVEILISLR--RK-KFVLLLDDVWE  267 (863)
Q Consensus       243 --------~~~~~~l~~~l~--~k-~~LlVlDdv~~  267 (863)
                              ...+..+.++++  ++ ++||++||+-.
T Consensus       238 p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR  273 (494)
T CHL00060        238 PPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR  273 (494)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence                    123345677774  34 99999999854

>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=93.24  E-value=0.057  Score=50.82  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|++|+||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998765

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=93.22  E-value=0.082  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||+|+|+.|+|||||+..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999887

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=93.22  E-value=0.09  Score=56.09  Aligned_cols=46  Identities=17%  Similarity=0.157  Sum_probs=40.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+||-++.+..+...+.++...-|.|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5679999999999988888888778899999999999999997654

>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=93.21  E-value=0.089  Score=55.58  Aligned_cols=46  Identities=20%  Similarity=0.253  Sum_probs=30.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHH
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQ  223 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  223 (863)
                      ++|.+.|-||+||||+|.+.+-... .++  ..++-++.....++..++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A-~~G--~rtLlvS~Dpa~~L~d~l   47 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALA-RRG--KRTLLVSTDPAHSLSDVL   47 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH-HTT--S-EEEEESSTTTHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHh-hCC--CCeeEeecCCCccHHHHh
Confidence            6899999999999999988776652 122  345666655554444443

...

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=93.20  E-value=0.67  Score=49.75  Aligned_cols=73  Identities=18%  Similarity=0.129  Sum_probs=41.8

Q ss_pred             CceEEEEEcCCCChHHH-HhhhhhhccccccCCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccccccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKIT-LLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIWNMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTt-La~~v~~~~~~~~~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~~l  249 (863)
                      +-++|.++|+.|+|||| ||+..+.-.  ....=..+..++.. ++.+.  +-++.-++-++.+..  ...+..++...+
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~--~~~~~~kVaiITtD-tYRIGA~EQLk~Ya~im~vp~~--vv~~~~el~~ai  276 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYV--MLKKKKKVAIITTD-TYRIGAVEQLKTYADIMGVPLE--VVYSPKELAEAI  276 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHH--hhccCcceEEEEec-cchhhHHHHHHHHHHHhCCceE--EecCHHHHHHHH
Confidence            47999999999999995 565544332  11222356666653 33332  334455566666642  244555555544


Q ss_pred             H
Q 038405          250 L  250 (863)
Q Consensus       250 ~  250 (863)
                      .
T Consensus       277 ~  277 (407)
T COG1419         277 E  277 (407)
T ss_pred             H
Confidence            4

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.20  E-value=0.051  Score=51.77  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|++|+||||+|+.+....
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.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=93.19  E-value=0.068  Score=49.16  Aligned_cols=25  Identities=32%  Similarity=0.522  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+++.|+|.+|+||||+.+.+-...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5789999999999999988765543

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=93.19  E-value=0.065  Score=52.32  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997764

>PRK03846 adenylylsulfate kinase; Provisional

Probab=93.15  E-value=0.077  Score=52.43  Aligned_cols=27  Identities=19%  Similarity=0.298  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|+|.+|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            455799999999999999999998865

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=93.14  E-value=0.1  Score=55.57  Aligned_cols=46  Identities=17%  Similarity=0.185  Sum_probs=36.9

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+.-.+.+.+..-+.+.|..|+||||+|+.+..-.
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            4678999999887765554555568999999999999999986543

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=93.12  E-value=0.23  Score=54.58  Aligned_cols=91  Identities=21%  Similarity=0.214  Sum_probs=53.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCccc--c--cccCh----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYI--W--NMKGE----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~--~--~~~~~----  242 (863)
                      ..-..++|+|..|+|||||++.+.+..     ..+..+++.+++. ..+.+...+..+.=......  .  .....    
T Consensus       153 ~~GqrigI~G~sG~GKSTLL~~I~~~~-----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~  227 (433)
T PRK07594        153 GEGQRVGIFSAPGVGKSTLLAMLCNAP-----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERV  227 (433)
T ss_pred             CCCCEEEEECCCCCCccHHHHHhcCCC-----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHH
Confidence            445689999999999999999988754     2344555555543 34445555543311111000  0  01111    


Q ss_pred             --hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  +++++||++||+-.
T Consensus       228 ~a~~~a~tiAEyfrd~G~~VLl~~Dsltr  256 (433)
T PRK07594        228 RALFVATTIAEFFRDNGKRVVLLADSLTR  256 (433)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCHHH
Confidence              11233455666  47899999999954

>TIGR01351 adk adenylate kinases

Probab=93.11  E-value=0.091  Score=52.46  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=20.0

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|++|+||||+|+.++...
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6799999999999999998765

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PLN02348 phosphoribulokinase

Probab=93.10  E-value=0.1  Score=55.91  Aligned_cols=27  Identities=30%  Similarity=0.516  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +...+|||.|.+|+||||+|+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            566899999999999999999999876

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.10  E-value=0.11  Score=58.91  Aligned_cols=55  Identities=22%  Similarity=0.377  Sum_probs=42.3

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA  212 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  212 (863)
                      ++++--.+.++++..||.+     ...+++.+.|++|+||||.++.+++..     .|+.+=|.+
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            3455566778889999954     335799999999999999999999875     356666754

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=93.10  E-value=0.076  Score=51.01  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.|+|+.|+||||+|+.+....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3469999999999999999999875

>PRK13948 shikimate kinase; Provisional

Probab=93.06  E-value=0.081  Score=51.07  Aligned_cols=26  Identities=19%  Similarity=0.208  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+.|.++|+.|+||||+++.+....
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45779999999999999999999876

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=93.04  E-value=0.086  Score=61.39  Aligned_cols=98  Identities=17%  Similarity=0.303  Sum_probs=59.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-----CEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-----DLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-----~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      ++.+||++++.++++.|....-.=-.++|-+|+|||++|.-++.+..  .+.-     +..++.     .|+..+     
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv--~g~VP~~L~~~~i~s-----LD~g~L-----  237 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIV--NGDVPESLKDKRIYS-----LDLGSL-----  237 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHh--cCCCCHHHcCCEEEE-----ecHHHH-----
Confidence            55789999999999999542222234689999999998887777651  1111     111110     011111     


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhc-cCcEEEEEccccc
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~  267 (863)
                        .....   -..+.+++.+.+.+.++ .++..|++|.+..
T Consensus       238 --vAGak---yRGeFEeRlk~vl~ev~~~~~vILFIDEiHt  273 (786)
T COG0542         238 --VAGAK---YRGEFEERLKAVLKEVEKSKNVILFIDEIHT  273 (786)
T ss_pred             --hcccc---ccCcHHHHHHHHHHHHhcCCCeEEEEechhh
Confidence              11111   13456666666666665 4589999999865

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=93.04  E-value=0.28  Score=54.28  Aligned_cols=91  Identities=21%  Similarity=0.245  Sum_probs=49.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcccc----cccCh----
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYIW----NMKGE----  242 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~----~~~~~----  242 (863)
                      ..-..++|+|..|+|||||++.+....   . . +..+...+... ..+.++.......-+......    ....+    
T Consensus       161 ~~Gq~~~I~G~sG~GKStLl~~I~~~~---~-~-~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~  235 (440)
T TIGR01026       161 GKGQRIGIFAGSGVGKSTLLGMIARNT---E-A-DVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRL  235 (440)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCC---C-C-CEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHH
Confidence            344678999999999999999888764   1 1 23333444433 234444444333211111000    01111    


Q ss_pred             --hhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          243 --YDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       243 --~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        ...+..+.+++  +++++|+++||+-.
T Consensus       236 ~~~~~a~t~AE~frd~G~~Vll~~DslTr  264 (440)
T TIGR01026       236 KGAYVATAIAEYFRDQGKDVLLLMDSVTR  264 (440)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEeChHH
Confidence              11222344555  57899999999854

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>PRK13975 thymidylate kinase; Provisional

Probab=93.01  E-value=0.071  Score=52.62  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|.|.|+.|+||||+|+.++...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999887

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=93.01  E-value=0.32  Score=46.80  Aligned_cols=119  Identities=16%  Similarity=0.070  Sum_probs=63.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC---CHHHHHHHHH--HH--cCCCcccccccChhh-
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG---NLEKIQEVIR--KK--LDISDYIWNMKGEYD-  244 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~---~~~~~~~~i~--~~--l~~~~~~~~~~~~~~-  244 (863)
                      ....|-|+|-.|-||||.|..++-+.   ..+=..+..+.+-+..   .-...+..+-  ..  .+.. ..+...+.++ 
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra---~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~-~~~~~~~~~e~   96 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRA---VGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTG-FTWETQDRERD   96 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHH---HHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCC-CcccCCCcHHH
Confidence            34688999999999999999888775   2232345555544432   3333333220  00  0111 0011111111 


Q ss_pred             ------HHHHHHHHhc-cCcEEEEEccccccc-----ccccccccCCCCCCCeEEEEeecchh
Q 038405          245 ------RAVEILISLR-RKKFVLLLDDVWERL-----DLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       245 ------~~~~l~~~l~-~k~~LlVlDdv~~~~-----~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                            .....++.+. ++-=|+|||.+-...     +.+++...+.....+..||+|=|+..
T Consensus        97 ~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986         97 IAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence                  1223334443 455699999986432     23344444444455678999999753

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.01  E-value=0.086  Score=52.39  Aligned_cols=25  Identities=32%  Similarity=0.539  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.++||+|+||||..+.++.+.
T Consensus        19 p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   19 PVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             CcEEEEEecCCCCchhHHHHHHHHH
Confidence            4578899999999999999999877

>cd01878 HflX HflX subfamily

Probab=92.99  E-value=0.21  Score=49.61  Aligned_cols=26  Identities=27%  Similarity=0.295  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|+|+|.+|+|||||...+.+..
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcch
Confidence            45689999999999999999888763

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=92.97  E-value=0.24  Score=54.43  Aligned_cols=91  Identities=19%  Similarity=0.234  Sum_probs=49.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcc-cc---cccChh---
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDY-IW---NMKGEY---  243 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~-~~---~~~~~~---  243 (863)
                      ..-..++|+|..|+|||||++.+....   .  .+.++...+... .++.++.+.+...-..... .+   .+....   
T Consensus       173 ~~Gqri~I~G~sG~GKTTLL~~Ia~~~---~--~d~iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~  247 (455)
T PRK07960        173 GRGQRMGLFAGSGVGKSVLLGMMARYT---Q--ADVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRM  247 (455)
T ss_pred             cCCcEEEEECCCCCCccHHHHHHhCCC---C--CCEEEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHH
Confidence            345679999999999999999888754   1  123333333322 2344444444322111100 00   111111   


Q ss_pred             ---hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          244 ---DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       244 ---~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                         ..+..+.+++  +++++|+++||+-.
T Consensus       248 ~~~~~a~tiAEyfrd~G~~Vll~~DslTr  276 (455)
T PRK07960        248 QGAAYATRIAEDFRDRGQHVLLIMDSLTR  276 (455)
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEEecchhH
Confidence               1223345555  47999999999854

>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=92.95  E-value=0.093  Score=49.98  Aligned_cols=22  Identities=50%  Similarity=0.575  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|.|.+|+|||||++.++...
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6899999999999999998876

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.

>PRK13946 shikimate kinase; Provisional

Probab=92.95  E-value=0.078  Score=51.65  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.++|+.|+||||+++.++...
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999999886

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=92.92  E-value=0.64  Score=52.85  Aligned_cols=46  Identities=22%  Similarity=0.306  Sum_probs=33.8

Q ss_pred             ccccchhhHHHH---HHHhhccCC---------ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDE---VWGCIEDQS---------EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~---l~~~L~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+..|.|+.+++   +++.|.++.         .+=+..+|++|.|||.||++++...
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA  207 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  207 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc
Confidence            345688776555   555665522         2347899999999999999999887

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	863
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		8e-08
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		2e-07
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		7e-07
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		4e-06

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 65/245 (26%), Positives = 111/245 (45%), Gaps = 36/245 (14%)
Query: 142 LPRPPVDGMATEKTVGA-DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLD 200
           +P+ PV  +  +K V A   KL ++ G         + ++GM G GK  L  +       
Sbjct: 119 VPQRPVVFVTRKKLVNAIQQKLSKLKG-----EPGWVTIHGMAGCGKSVLAAEAVRDHSL 173
Query: 201 VNHCF-DLVIFVAVSKE---GNLEKIQEVIRKKLDISDYI-----WNMKGEYDRAVEILI 251
           +  CF   V +V+V K+   G L K+Q +   +LD  +        N++   DR + IL+
Sbjct: 174 LEGCFPGGVHWVSVGKQDKSGLLMKLQNLC-TRLDQDESFSQRLPLNIEEAKDR-LRILM 231
Query: 252 SLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAALDLFR 311
             +  + +L+LDDVW+   L       S CQ    I+ TTR + V    + P+  + +  
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAFD---SQCQ----ILLTTRDKSVTDSVMGPKYVVPV-E 283
Query: 312 YKVGED---------VFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYV 362
             +G++         V     ++P  A +++ ECKG PL +  I   +  R  P  W+Y 
Sbjct: 284 SSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYY 341
Query: 363 IDELQ 367
           + +LQ
Sbjct: 342 LKQLQ 346

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 64/244 (26%), Positives = 110/244 (45%), Gaps = 34/244 (13%)
Query: 142 LPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV 201
           +P+ PV  +  +K V A  +  ++W    +    TI  YGM G GK  L  +       +
Sbjct: 119 VPQRPVIFVTRKKLVHAIQQ--KLWKLNGEPGWVTI--YGMAGCGKSVLAAEAVRDHSLL 174
Query: 202 NHCFDL-VIFVAVSKE---GNLEKIQEVIRKKLDISDYI-----WNMKGEYDRAVEILIS 252
             CF   V +V++ K+   G L K+Q +  + LD  +        N++   DR + +L+ 
Sbjct: 175 EGCFSGGVHWVSIGKQDKSGLLMKLQNLCMR-LDQEESFSQRLPLNIEEAKDR-LRVLML 232
Query: 253 LRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAAL----D 308
            +  + +L+LDDVW+   L           N  +I+ TTR + V    + P+  +     
Sbjct: 233 RKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESG 285
Query: 309 LFRYKVGEDVFN-----SHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVI 363
           L R K G ++ +        ++P  A +++ ECKG PL +  I   +  R  P  W Y +
Sbjct: 286 LGREK-GLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYL 342
Query: 364 DELQ 367
            +LQ
Sbjct: 343 RQLQ 346

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 63/244 (25%), Positives = 109/244 (44%), Gaps = 34/244 (13%)
Query: 142 LPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV 201
           +P+ PV  +  +K V A  +  ++W    +    TI  YGM G GK  L  +       +
Sbjct: 126 VPQRPVIFVTRKKLVHAIQQ--KLWKLNGEPGWVTI--YGMAGCGKSVLAAEAVRDHSLL 181
Query: 202 NHCFDL-VIFVAVSKE---GNLEKIQEVIRKKLDISDYI-----WNMKGEYDRAVEILIS 252
             CF   V +V++ K+   G L K+Q +  + LD  +        N++   DR + +L+ 
Sbjct: 182 EGCFSGGVHWVSIGKQDKSGLLMKLQNLCMR-LDQEESFSQRLPLNIEEAKDR-LRVLML 239
Query: 253 LRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVCVECLSPEAAL----D 308
            +  + +L+LDDVW+   L           N  +I+ TT  + V    + P+  +     
Sbjct: 240 RKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTSDKSVTDSVMGPKHVVPVESG 292
Query: 309 LFRYKVGEDVFN-----SHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVI 363
           L R K G ++ +        ++P  A +++ ECKG PL +  I   +  R  P  W Y +
Sbjct: 293 LGREK-GLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYL 349
Query: 364 DELQ 367
            +LQ
Sbjct: 350 RQLQ 353

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	863
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-55
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-49
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-39
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-23
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-06
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-21
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-18
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-16
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	8e-18
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-17
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-10
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-17
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-10
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-16
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-14
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-16
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-16
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	6e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-16
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-16
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-16
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-16
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-15
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-12
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-05
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-11
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-14
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	7e-13
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-13
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-12
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-11
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-05
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-10
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	9e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-08
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	1e-05
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	3e-08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	6e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	3e-07
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	9e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	7e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	4e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	4e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-05
3m19_A	251	Variable lymphocyte receptor A diversity region; a	9e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	7e-05
3m19_A	251	Variable lymphocyte receptor A diversity region; a	1e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	4e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-04
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	2e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	5e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	6e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	8e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-04
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	7e-05
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	8e-04

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

 Score =  200 bits (510), Expect = 1e-55
 Identities = 59/503 (11%), Positives = 147/503 (29%), Gaps = 61/503 (12%)

Query: 27  HLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQRKRKKVVEGWLNAVESEIKEVDGIL 86
              D L  L  K    ED +E I          +   R + +  +L     +  E+  ++
Sbjct: 22  EPRDALTYLEGKNIFTEDHSELIS---------KMSTRLERIANFLRIYRRQASELGPLI 72

Query: 87  QKGCQEIEKKCLGGCCTRNCYASYKIGKTVTEEISKVTLLRLEGQDFESVYFTYKLPRPP 146
                  +            +A  +        I+     +   Q  +       +P+  
Sbjct: 73  DFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAP----QFSRQMLDRKLLLGNVPKQM 128

Query: 147 VDGMATEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKP-NNKFLDVNHCF 205
              +          KLDE+     D     + L+G  G GK  +  +  +     +   +
Sbjct: 129 TCYIREYHVDRVIKKLDEM----CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 184

Query: 206 DLVIFVAVS---KEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRR-----KK 257
           D ++++  S    +   +   +++       D +     E+  +V +   +         
Sbjct: 185 DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 244

Query: 258 FVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----------VECLSPEAA 306
            + + DDV +   +          +   + + TTR  E+            V  L  +  
Sbjct: 245 TLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDEC 298

Query: 307 LDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDEL 366
            D               +   +    +    G P  L+   ++   +    +   + ++L
Sbjct: 299 YDFLEAYGMPM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKL 355

Query: 367 QRNPSR-----FAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLW 421
           +                 +   L+   + L+D+  ++   +  + P   +I       + 
Sbjct: 356 ESRGLVGVECITPYSYKSLAMALQRCVEVLSDE-DRSALAFAVVMPPGVDIPVKLWSCVI 414

Query: 422 IGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDF-VKMHDVVRDMALWLASNE 480
             +   ++   +    ++    +  L     L SG+       K+  ++      +   +
Sbjct: 415 PVDICSNEEEQL---DDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQ 471

Query: 481 S-----KILVQRSSDCTNKSADS 498
           +      IL QR  +  N +   
Sbjct: 472 TIANGISILEQRLLEIGNNNVSV 494

>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 =  183 bits (465), Expect = 3e-49
 Identities = 69/363 (19%), Positives = 125/363 (34%), Gaps = 56/363 (15%)

Query: 170 EDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIF-VAVSKE---GNLEKIQEV 225
                  + ++GM G GK  L  +       +  CF   +  V+V K+   G L K+Q +
Sbjct: 143 LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNL 202

Query: 226 IRKKLDISDYIWNMKGEYDRAVEIL---ISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQ 282
             +      +   +    + A + L   +  +  + +L+LDDVW+   L           
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLK-------AFD 255

Query: 283 NGSKIVFTTRSEEVCVEC------------LSPEAALDLFRYKVGEDVFNSHPEIPTLAQ 330
           +  +I+ TTR + V                L  E  L++    V         ++P  A 
Sbjct: 256 SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV----NMKKADLPEQAH 311

Query: 331 AVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPSRFAGMGNL-----VFPILR 385
           +++ ECKG PL +  I   +     P  W+Y + +LQ    +     +      +   + 
Sbjct: 312 SIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMS 369

Query: 386 FSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYIIG 445
            S + L +D +K  +   S+  ++  +    L  LW  E              + E I+ 
Sbjct: 370 ISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMETE------------EVEDILQ 416

Query: 446 SLKLACLLE-SGEYSEDFVKMHDVVRDMAL-----WLASNESKILVQRSSDCTNKSADSW 499
                 LL            +HD+  D         L     KI+ Q        +    
Sbjct: 417 EFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPD 476

Query: 500 RED 502
           +ED
Sbjct: 477 QED 479

>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 =  158 bits (399), Expect = 1e-39
 Identities = 103/695 (14%), Positives = 216/695 (31%), Gaps = 184/695 (26%)

Query: 2   DCVSPILDIFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDL------NEDIKRRVET 55
           D +S   D F   +DC        + ++D  KS+   K +I+ +           R   T
Sbjct: 20  DILSVFEDAFVDNFDC--------KDVQDMPKSIL-SKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 56  EEQQQQRKRKKVVEGWLNAVESEIKEVDGILQKGCQEIEKKCLGGCCTRNCYASYKIGKT 115
              +Q+   +K VE  L            ++      I+ +          Y        
Sbjct: 71  LLSKQEEMVQKFVEEVLR------INYKFLMSP----IKTEQRQPSMMTRMY-------- 112

Query: 116 VTEEISKVTLLRLEGQDFESVYFTYKLPRPPVDGMATEKTVGADSKLDEVWGCIEDQSEQ 175
               I +   L  + Q F      Y + R        +  +     L      +E +  +
Sbjct: 113 ----IEQRDRLYNDNQVFAK----YNVSRL-------QPYLKLRQAL------LELRPAK 151

Query: 176 TIGLYGMGGVGKITL-----------LKKPNNKF-LDVNHCFDLVIFVAVSKEGNLEKIQ 223
            + + G+ G GK  +            K     F L++ +C         S E  LE +Q
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN--------SPETVLEMLQ 203

Query: 224 EVIRK-------KLDISDYIWNMKGEYDRAVEILISLRRKKFVLL-LDDVWERLDLSKTG 275
           +++ +       + D S  I          +  L+  +  +  LL L +V      +   
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 276 VSLSDCQNGSKIVFTTRSEEV----------------CVECLSPEAALDLFRYKVGEDVF 319
           +S   C    KI+ TTR ++V                    L+P+    L    +     
Sbjct: 264 LS---C----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316

Query: 320 NSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPRE-WQYV-IDELQRNPSRFAGMG 377
               ++P             P  L  IA ++    +  + W++V  D+L           
Sbjct: 317 ----DLPREV------LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT--------- 357

Query: 378 NLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTAR 437
                I+  S + L     +  F   S+FP   +I    L  +W               +
Sbjct: 358 -----IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV-----------IK 401

Query: 438 NQGEYIIGSLKLACLLESGEYSEDFVKMHDVVRDMALWLASNES--KILVQR----SSDC 491
           +    ++  L    L+E  +  E  + +  +  ++ + L +  +  + +V       +  
Sbjct: 402 SDVMVVVNKLHKYSLVE-KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460

Query: 492 TNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLD 551
           ++     + + +    + S I +       HL+ +      + +F   F         LD
Sbjct: 461 SDDLIPPYLDQY----FYSHIGH-------HLKNIE-HPERMTLFRMVF---------LD 499

Query: 552 LSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPAR 611
             +          +   I       + +    + + +  LK  K  + D    +  +   
Sbjct: 500 FRF----------LEQKIRHDSTAWNASG--SILNTLQQLKFYKPYICDNDPKYERLVNA 547

Query: 612 VFSSLLSLKVFSLFS--TELIELHRMPPNQTTILD 644
           +   L  ++   + S  T+L+ +  M  ++    +
Sbjct: 548 ILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582

>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 = 54.9 bits (131), Expect = 1e-07
 Identities = 67/383 (17%), Positives = 115/383 (30%), Gaps = 113/383 (29%)

Query: 501 EDFRLSLWGSS-IEYLPETPCPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYN 555
           +D   S+     I+++  +      TL + F  L         +F E      VL ++Y 
Sbjct: 39  QDMPKSILSKEEIDHIIMSKDAVSGTLRL-FWTLLSKQEEMVQKFVEE-----VLRINYK 92

Query: 556 LDLTQLPAE-----MGALINLRCLN-LSNTS-------------IEELPSEIMYLKNLKI 596
             ++ +  E     M   + +   + L N +               +L   ++ L+  K 
Sbjct: 93  FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152

Query: 597 LLLDGMRHF---HLIPARVFSSLLSLKV-----FSLF---------STELIE-----LHR 634
           +L+DG+       +         LS KV     F +F            ++E     L++
Sbjct: 153 VLIDGVLGSGKTWV----ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 635 MPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID 694
           + PN T+  D      N    I         L K   S    +C   L +   L     +
Sbjct: 209 IDPNWTSRSDHSS---NIKLRIHSIQAELRRLLK---SKPYENC---LLV---LL----N 252

Query: 695 LRNMMHLETLNIVEC-----------------------SLERVDPTFNG---------WT 722
           ++N       N+  C                       SL+    T            + 
Sbjct: 253 VQNAKAWNAFNL-SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 723 NFHNLHHLSIRVC---PVIRDLTW--IREAPN-LQFLSLVNCQALSEIIESAGSS-EVAE 775
           +      L   V    P    +    IR+          VNC  L+ IIES+ +  E AE
Sbjct: 312 D-CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370

Query: 776 SHNYFAYLMVIDLDSLPSLKRIC 798
               F  L V    +      + 
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLS 393

>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 = 99.6 bits (249), Expect = 8e-23
 Identities = 45/271 (16%), Positives = 89/271 (32%), Gaps = 35/271 (12%)

Query: 505 LSLWGSSIEYLPETPC----PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            +  G +++   +       P    L +R   L  FP + F  +  L+ + +     L +
Sbjct: 61  ETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFR-LSHLQHMTIDAA-GLME 118

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPA--------RV 612
           LP  M     L  L L+   +  LP+ I  L  L+ L +        +P           
Sbjct: 119 LPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGE 178

Query: 613 FSSLLSLKVFSLFSTELIELHRMPPN--QTTILDELECLGNQIYEISITLGSASALFKIN 670
              L++L+   L  T +  L   P +      L  L+   + +  +   +     L +++
Sbjct: 179 HQGLVNLQSLRLEWTGIRSL---PASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELD 235

Query: 671 FSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECS-LERVDPTFNGWTNFHNLHH 729
                C+ ++                    L+ L + +CS L  +            L  
Sbjct: 236 LRG--CTALRNY---------PPIFGGRAPLKRLILKDCSNLLTLPLDI---HRLTQLEK 281

Query: 730 LSIRVCPVIRDL-TWIREAPNLQFLSLVNCQ 759
           L +R C  +  L + I + P    + +    
Sbjct: 282 LDLRGCVNLSRLPSLIAQLPANCIILVPPHL 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 = 65.0 bits (159), Expect = 3e-11
 Identities = 50/318 (15%), Positives = 91/318 (28%), Gaps = 45/318 (14%)

Query: 538 HRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKIL 597
           H         + L    +  L      +      +    ++ +            N +I 
Sbjct: 5   HHHHHHSSGRENLYFQGSTALRPYHDVLS---QWQRHYNADRNRWHSAWRQANSNNPQIE 61

Query: 598 LLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIY 654
              G            ++        L S  L +     P+Q   L  L+ +      + 
Sbjct: 62  TRTGRALKATADLLEDATQPGRVALELRSVPLPQF----PDQAFRLSHLQHMTIDAAGLM 117

Query: 655 EISITLGSASALFKINFSW----KLCSCIKRLTIMHNLD-----------------SHSI 693
           E+  T+   + L  +  +      L + I  L  +  L                    S 
Sbjct: 118 ELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177

Query: 694 DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQF 752
           + + +++L++L +    +  +  +     N  NL  L IR  P +  L   I   P L+ 
Sbjct: 178 EHQGLVNLQSLRLEWTGIRSLPASI---ANLQNLKSLKIRNSP-LSALGPAIHHLPKLEE 233

Query: 753 LSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSV 812
           L L  C AL       G           A L  + L    +L  +         L+ + +
Sbjct: 234 LDLRGCTALRNYPPIFG---------GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDL 284

Query: 813 TNCPNLRELPFNFDSAKN 830
             C NL  LP        
Sbjct: 285 RGCVNLSRLPSLIAQLPA 302

>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 = 50.7 bits (122), Expect = 1e-06
 Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 5/88 (5%)

Query: 504 RLSLWG-SSIEYLPET--PCPHLQTL-LVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L L G +++   P        L+ L L   + L   P      +  L+ LDL   ++L+
Sbjct: 233 ELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDI-HRLTQLEKLDLRGCVNLS 291

Query: 560 QLPAEMGALINLRCLNLSNTSIEELPSE 587
           +LP+ +  L     + +      +L   
Sbjct: 292 RLPSLIAQLPANCIILVPPHLQAQLDQH 319

>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 = 98.7 bits (246), Expect = 4e-21
 Identities = 72/367 (19%), Positives = 128/367 (34%), Gaps = 56/367 (15%)

Query: 166 WGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKE---GNLEK 221
                +     + +YGM G GK  L  +       +  CF   V +V++ K+   G L K
Sbjct: 139 KLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK 198

Query: 222 IQEVIRKKLDISDYIWNMKGEYDRAVEILISL---RRKKFVLLLDDVWERLDLSKTGVSL 278
           +Q +  +      +   +    + A + L  L   +  + +L+LDDVW+   L       
Sbjct: 199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD--- 255

Query: 279 SDCQNGSKIVFTTRSEEVCVEC------------LSPEAALDLFRYKVGEDVFNSHPEIP 326
               N  +I+ TTR + V                L  E  L++    V         ++P
Sbjct: 256 ----NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLP 307

Query: 327 TLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQ-RNPSRFAGMGNLVFP--- 382
             A +++ ECKG PL +  I   +  R  P  W Y + +LQ +   R     +  +    
Sbjct: 308 AEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALD 365

Query: 383 -ILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGE 441
             +  S + L +D +K  +   S+  ++  +    L  LW                 + E
Sbjct: 366 EAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLW------------DLETEEVE 412

Query: 442 YIIGSLKLACLLE-SGEYSEDFVKMHDVVRDMAL-----WLASNESKILVQRSSDCTNKS 495
            I+       LL  +         +HD+  D         L     K++ Q        +
Sbjct: 413 DILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQPHT 472

Query: 496 ADSWRED 502
               +ED
Sbjct: 473 LSPDQED 479

>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 = 88.2 bits (219), Expect = 2e-18
 Identities = 49/319 (15%), Positives = 103/319 (32%), Gaps = 43/319 (13%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           +L    ++I  L  +   +L  L      L          +  L  L+   N  LT+L  
Sbjct: 68  KLICTSNNITTLDLSQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDTN-KLTKLD- 122

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +     L  LN +  ++ E+   + +   L  L     +    +     +    L    
Sbjct: 123 -VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLD 176

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT 683
               ++ EL     +Q  +L+ L C  N I ++ +                    +  L 
Sbjct: 177 CSFNKITEL---DVSQNKLLNRLNCDTNNITKLDLN---------------QNIQLTFLD 218

Query: 684 IMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW 743
              N  +  ID+  +  L   +     L  +D      +    L  L       + ++  
Sbjct: 219 CSSNKLT-EIDVTPLTQLTYFDCSVNPLTELDV-----STLSKLTTLHCIQTD-LLEID- 270

Query: 744 IREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRI-CHGTM 802
           +     L +     C+ + E+  +  ++++       A +  +DL   P L  +  + T 
Sbjct: 271 LTHNTQLIYFQAEGCRKIKELDVT-HNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNT- 328

Query: 803 PFPSLQNVSVTNCPNLREL 821
               L  + V++   L+ L
Sbjct: 329 ---ELTELDVSHNTKLKSL 344

>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 = 80.1 bits (198), Expect = 8e-16
 Identities = 54/324 (16%), Positives = 103/324 (31%), Gaps = 57/324 (17%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD 600
            E +  L  LD   +  +T +   +  L  L  L  ++ +I  L   +    NL  L  D
Sbjct: 38  EEQLATLTSLDCHNS-SITDMT-GIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACD 93

Query: 601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT- 659
             +    +     + L  L   +  + +L +L     +Q  +L  L C  N + EI ++ 
Sbjct: 94  SNK----LTNLDVTPLTKLTYLNCDTNKLTKL---DVSQNPLLTYLNCARNTLTEIDVSH 146

Query: 660 -------------------LGSASALFKINFSW--------KLCSCIKRLTIMHNLDSHS 692
                              +   + L  ++ S+             + RL    N  +  
Sbjct: 147 NTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNIT-K 205

Query: 693 IDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQF 752
           +DL   + L  L+     L  +D      T    L +    V P + +L  +     L  
Sbjct: 206 LDLNQNIQLTFLDCSSNKLTEID-----VTPLTQLTYFDCSVNP-LTELD-VSTLSKLTT 258

Query: 753 LSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRI-CHGTMPFPSLQNVS 811
           L  +    L EI  +  +  +         +  +D+     L  + C        +  + 
Sbjct: 259 LHCIQTD-LLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAA----GITELD 313

Query: 812 VTNCPNLRELPFNFDSAKNSLVSI 835
           ++  P L  L  N       L  +
Sbjct: 314 LSQNPKLVYLYLNN----TELTEL 333

>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 = 70.5 bits (173), Expect = 9e-13
 Identities = 43/286 (15%), Positives = 87/286 (30%), Gaps = 51/286 (17%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN----LDLT 559
            L+   +++  +  +    L  L                    L  LD S+N    LD++
Sbjct: 131 YLNCARNTLTEIDVSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITELDVS 188

Query: 560 QLPA--------------EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHF 605
           Q                 ++   I L  L+ S+  + E+   +  L  L           
Sbjct: 189 QNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVNP-L 245

Query: 606 HLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASA 665
             +     S+L  L       T+L+E+        T L   +  G +  +  + +   + 
Sbjct: 246 TELD---VSTLSKLTTLHCIQTDLLEI---DLTHNTQLIYFQAEGCRKIK-ELDVTHNTQ 298

Query: 666 LFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFH 725
           L+ ++           +T         +DL     L  L +    L  +D      ++  
Sbjct: 299 LYLLDCQA------AGIT--------ELDLSQNPKLVYLYLNNTELTELDV-----SHNT 339

Query: 726 NLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSS 771
            L  LS      I+D + + + P L        Q    + +   ++
Sbjct: 340 KLKSLSCVNAH-IQDFSSVGKIPALNNNFEAEGQ-TITMPKETLTN 383

>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 = 87.0 bits (216), Expect = 8e-18
 Identities = 60/347 (17%), Positives = 108/347 (31%), Gaps = 44/347 (12%)

Query: 509 GSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGA--LKVLDLSYNLDLTQLPAEM- 565
               + L  +    L          E      FE +    ++ ++L  +     + +   
Sbjct: 216 LVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKH-YFFNISSNTF 274

Query: 566 GALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLF 625
                L+ L+L+ T + ELPS ++ L  LK L+L   + F  +     S+  SL   S+ 
Sbjct: 275 HCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANK-FENLCQISASNFPSLTHLSIK 333

Query: 626 STELIELHRMPPNQTTILDELECL---GNQIYEISI---TLGSASALFKINFS------- 672
                            L+ L  L    + I         L + S L  +N S       
Sbjct: 334 GNTKRLEL--GTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSL 391

Query: 673 ----WKLCSCIKRLTIMHN----LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNF 724
               +K C  ++ L +        D+ S   +N+  L+ LN+    L+        +   
Sbjct: 392 KTEAFKECPQLELLDLAFTRLKVKDAQSP-FQNLHLLKVLNLSHSLLDISSEQL--FDGL 448

Query: 725 HNLHHLSIRVCPVIRDLTWIREA-----PNLQFLSLVNCQALSEIIESA--GSSEVAE-- 775
             L HL+++           +         L+ L L  C  LS I + A      +    
Sbjct: 449 PALQHLNLQGNH-FPKGNIQKTNSLQTLGRLEILVLSFCD-LSSIDQHAFTSLKMMNHVD 506

Query: 776 -SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
            SHN      +  L  L  +            +    +      R +
Sbjct: 507 LSHNRLTSSSIEALSHLKGIYLNLASNH-ISIILPSLLPILSQQRTI 552

>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 = 83.1 bits (206), Expect = 1e-16
 Identities = 64/363 (17%), Positives = 106/363 (29%), Gaps = 45/363 (12%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L    + +  +  T      +L  L +    +       F+S   L  L L+ N  L  
Sbjct: 37  CLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP-LIF 95

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +          L+ L    T I  +    +   K L+ L L    H   I          
Sbjct: 96  MAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS-NHISSIKLPKGFPTEK 154

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECL-----GNQIYEISITLGSASALFKINFSW 673
           LKV    +  +  L        + L +   L     GN I  I      ++    +NF  
Sbjct: 155 LKVLDFQNNAIHYL---SKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFG- 210

Query: 674 KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIR 733
                   L I   L + +I       L      +   E + P         ++  ++++
Sbjct: 211 ---GTQNLLVIFKGLKNSTIQ-----SLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQ 262

Query: 734 VCPVIRDLT--WIREAPNLQFLSLVNCQALSEIIESAGSSEVAE----SHNYFAYLMVID 787
                 +++         LQ L L     LSE+          +    S N F  L  I 
Sbjct: 263 KHY-FFNISSNTFHCFSGLQELDLTATH-LSELPSGLVGLSTLKKLVLSANKFENLCQIS 320

Query: 788 LDSLPSLKRI-----CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWW 842
             + PSL  +              L    + N  NLREL    D + + + +        
Sbjct: 321 ASNFPSLTHLSIKGNTKRL----ELGTGCLENLENLREL----DLSHDDIETSDCCNLQL 372

Query: 843 EQL 845
             L
Sbjct: 373 RNL 375

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

 Score = 63.5 bits (155), Expect = 2e-10
 Identities = 42/297 (14%), Positives = 93/297 (31%), Gaps = 35/297 (11%)

Query: 547 LKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRH 604
            + L+ S+N+ L  +       LINL  L+L+   I  +  +       L  L+L     
Sbjct: 35  TECLEFSFNV-LPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANP- 92

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI-TLGSA 663
              +     S   +LK      T +  +  +P +    L+ L    N I  I +      
Sbjct: 93  LIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPT 152

Query: 664 SALFKINFSW-KLCSCIKRLTI--MHNLDSHSIDLRN------------MMHLETLNIVE 708
             L  ++F    +   + +  +  +    + S++L                  ++LN   
Sbjct: 153 EKLKVLDFQNNAI-HYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGG 211

Query: 709 CSLERVDPTFNGWTNFHNLHHLSIRVCP---VIRDLTWIREAPNLQFLSLVNCQALSEII 765
                V       +   +L   +        +   +       +++ ++L        I 
Sbjct: 212 TQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHY-FFNIS 270

Query: 766 ESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP 822
            +            F+ L  +DL +   L  +  G +   +L+ + ++       L 
Sbjct: 271 SNTFHC--------FSGLQELDLTAT-HLSELPSGLVGLSTLKKLVLSAN-KFENLC 317

>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 = 2e-09
 Identities = 46/304 (15%), Positives = 87/304 (28%), Gaps = 41/304 (13%)

Query: 548 KVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFH 606
           K  +      L ++P  +    +  CL  S   +  + +     L NL  L L      +
Sbjct: 15  KTYNCENL-GLNEIPGTL--PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTR-CQIY 70

Query: 607 LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI-SITLGSASA 665
            I    F S   L    L +  LI +     +    L  L  +   I  I  I L +   
Sbjct: 71  WIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKT 130

Query: 666 LFKINFSW-KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDP-TFNGWTN 723
           L  +      +           ++            L+ L+    ++  +     +    
Sbjct: 131 LESLYLGSNHI----------SSIKLPK--GFPTEKLKVLDFQNNAIHYLSKEDMSSLQQ 178

Query: 724 FH----NLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE-SHN 778
                 NL+   I             ++   Q L+    Q L  I +   +S +      
Sbjct: 179 ATNLSLNLNGNDIAGIE-----PGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLG 233

Query: 779 YFAYLMVIDLDSLP-------SLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNS 831
            F  +   D+           S++ I      F ++ + +      L+EL    D     
Sbjct: 234 TFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQEL----DLTATH 289

Query: 832 LVSI 835
           L  +
Sbjct: 290 LSEL 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 = 86.1 bits (213), Expect = 1e-17
 Identities = 53/267 (19%), Positives = 94/267 (35%), Gaps = 40/267 (14%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
            L++  S +  LP+    H+ TL++    L   P         L+ L++S N  LT LP 
Sbjct: 44  VLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLP----ALPPELRTLEVSGNQ-LTSLPV 98

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
               L+ L   +   T +  LPS       L  L + G +    +P         L+  S
Sbjct: 99  LPPGLLELSIFSNPLTHLPALPS------GLCKLWIFGNQ-LTSLPV----LPPGLQELS 147

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW----KLCSCI 679
           +   +L  L  +P      L +L    NQ+  + +       L +++ S      L +  
Sbjct: 148 VSDNQLASLPALPSE----LCKLWAYNNQLTSLPMLPSG---LQELSVSDNQLASLPTLP 200

Query: 680 KRLTIMHNLDSHSIDLRNMMH-LETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVI 738
             L  +   ++    L  +   L+ L +    L  +    +       L  L +      
Sbjct: 201 SELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTSLPVLPS------ELKELMVSGNR-- 252

Query: 739 RDLTWI-REAPNLQFLSLVNCQALSEI 764
             LT +      L  LS+   Q L+ +
Sbjct: 253 --LTSLPMLPSGLLSLSVYRNQ-LTRL 276

>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 = 68.0 bits (166), Expect = 8e-12
 Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 9/98 (9%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           +L  + + +  LP  P   L+ L+V    L   P         LK L +S N  LT LP 
Sbjct: 205 KLWAYNNRLTSLPALP-SGLKELIVSGNRLTSLP----VLPSELKELMVSGNR-LTSLPM 258

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
                  L  L++    +  LP  +++L +   + L+G
Sbjct: 259 LPS---GLLSLSVYRNQLTRLPESLIHLSSETTVNLEG 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 = 64.5 bits (157), Expect = 1e-10
 Identities = 26/149 (17%), Positives = 48/149 (32%), Gaps = 11/149 (7%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
            L + G+ +  LP  P   L+ L+V    L   P         L  L +  N  LT+LP 
Sbjct: 225 ELIVSGNRLTSLPVLPS-ELKELMVSGNRLTSLP----MLPSGLLSLSVYRN-QLTRLPE 278

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +  L +   +NL    + E   + +  + +            +I   +  +    +  +
Sbjct: 279 SLIHLSSETTVNLEGNPLSERTLQAL--REITSAPGYSGP---IIRFDMAGASAPRETRA 333

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQ 652
           L       L      +    D     G +
Sbjct: 334 LHLAAADWLVPAREGEPAPADRWHMFGQE 362

>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 = 84.0 bits (208), Expect = 5e-17
 Identities = 69/334 (20%), Positives = 116/334 (34%), Gaps = 57/334 (17%)

Query: 501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN----- 555
           +D  +         +PE      + L +    ++      F S   L+ L+L+ N     
Sbjct: 12  QDRAVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAV 71

Query: 556 -------------LDL-----TQLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLK 595
                        L L       +P  +   L NL  L++S   I  L   +   L NLK
Sbjct: 72  EPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLK 131

Query: 596 ILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYE 655
            L +        I  R FS L SL+  +L    L  +     +    L  L      I  
Sbjct: 132 SLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINA 190

Query: 656 ISITLGSASALFKINFSWKLCSCIKRLTIMHN--LDSHSIDLRNMMHLETLNIVECSLER 713
           I             ++S+K    +K L I H   LD+ + +    ++L +L+I  C+L  
Sbjct: 191 IR------------DYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA 238

Query: 714 VDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREA-----PNLQFLSLVNCQALSEIIESA 768
           V        +   L  L++   P    ++ I  +       LQ + LV  Q L+ +   A
Sbjct: 239 VPY--LAVRHLVYLRFLNLSYNP----ISTIEGSMLHELLRLQEIQLVGGQ-LAVVEPYA 291

Query: 769 --GSSEVAE---SHNYFAYLMVIDLDSLPSLKRI 797
             G + +     S N    L      S+ +L+ +
Sbjct: 292 FRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETL 325

>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 = 71.3 bits (175), Expect = 5e-13
 Identities = 36/183 (19%), Positives = 68/183 (37%), Gaps = 10/183 (5%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           +L+L   ++  +P    +    L  L +R   +       F+ +  LKVL++S+   L  
Sbjct: 156 QLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDT 215

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSL 619
           +       +NL  L++++ ++  +P   + +L  L+ L L        I   +   LL L
Sbjct: 216 MTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNP-ISTIEGSMLHELLRL 274

Query: 620 KVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI-TLGSASALFKINFS---WKL 675
           +   L   +L  +          L  L   GNQ+  +      S   L  +         
Sbjct: 275 QEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPL-A 333

Query: 676 CSC 678
           C C
Sbjct: 334 CDC 336

>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 = 83.9 bits (208), Expect = 7e-17
 Identities = 47/277 (16%), Positives = 95/277 (34%), Gaps = 21/277 (7%)

Query: 504 RLSLWGSSIEYLPETP---CPHLQTLLVRFTVL-EIFPHRFFESMGALKVLDLSYNLDLT 559
            L    + +  L   P      L+ L V    +       +F ++  L  +DLSYN  + 
Sbjct: 108 NLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN-YIQ 166

Query: 560 QLPAEM-GALINLRC----LNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFS 614
            +       L         L++S   I+ +  +      L  L L G  +   I      
Sbjct: 167 TITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQ 226

Query: 615 SLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWK 674
           +L  L V  L   E  +   +   + +I++ L  +   I E  +T  +  +   + F   
Sbjct: 227 NLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDV--TIDEFRLTYTNDFSDDIVKFHC- 283

Query: 675 LCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRV 734
             + +  +++      +  D+      ++L+I+ C L++         +   L  L++ +
Sbjct: 284 -LANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPT-----LDLPFLKSLTLTM 337

Query: 735 CPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSS 771
                        P+L +L L     LS     + S 
Sbjct: 338 NK-GSISFKKVALPSLSYLDLSRNA-LSFSGCCSYSD 372

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 70.4 bits (173), Expect = 1e-12
 Identities = 57/345 (16%), Positives = 95/345 (27%), Gaps = 76/345 (22%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L    IE + +       HL  L++    ++ F    F  + +L+ L       L  
Sbjct: 60  WLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETK-LAS 118

Query: 561 LPAEM-GALINLRCLNLSNTSIEE--LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLL 617
           L +   G LI L+ LN+++  I    LP+    L NL  + L    +   I       L 
Sbjct: 119 LESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYN-YIQTITVNDLQFLR 177

Query: 618 SLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS----- 672
                                   +   L+   N I  I         L ++        
Sbjct: 178 EN--------------------PQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNS 217

Query: 673 ----WKLCSCIKRLTIMHNLDSHSIDLRNM--------MHLETLNIVECSLERVDPTFNG 720
                     +  L +   +     D RN+          L  + I E  L   +   + 
Sbjct: 218 SNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDD 277

Query: 721 WTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYF 780
              FH L                     N+  +SL     +  + +     +        
Sbjct: 278 IVKFHCL--------------------ANVSAMSLAGVS-IKYLEDVPKHFKWQSLSIIR 316

Query: 781 AYLMVIDLDSLPSLKRI----CHGTMPFPSLQNVSVTNCPNLREL 821
             L       LP LK +      G++ F           P+L  L
Sbjct: 317 CQLKQFPTLDLPFLKSLTLTMNKGSISFKK------VALPSLSYL 355

>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 = 68.1 bits (167), Expect = 6e-12
 Identities = 49/332 (14%), Positives = 91/332 (27%), Gaps = 63/332 (18%)

Query: 521 PHLQTLLVRFTVLEIF--PHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN 578
             +     R T    F      F  +  +  + L+    +  L          + L++  
Sbjct: 259 CDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPK-HFKWQSLSIIR 316

Query: 579 TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN 638
             +++ P+    L  LK L L          +    +L SL    L    L        +
Sbjct: 317 CQLKQFPTL--DLPFLKSLTL---TMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYS 371

Query: 639 Q--TTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLR 696
              T  L  L+   N    +S        L  ++F          L  +    +      
Sbjct: 372 DLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS------TLKRVTEFSA----FL 421

Query: 697 NMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW--IREAPNLQFLS 754
           ++  L  L+I   + +        +    +L+ L +       +          NL FL 
Sbjct: 422 SLEKLLYLDISYTNTKIDFDGI--FLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLD 479

Query: 755 LVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLK-------RICHGTMPFPSL 807
           L  CQ L +I                        D+L  L+        +         L
Sbjct: 480 LSKCQ-LEQISWGV-------------------FDTLHRLQLLNMSHNNLL-------FL 512

Query: 808 QNVSVTNCPNLRELPFNFDSAKNSLVSIRGSA 839
            +       +L  L    D + N + + +G  
Sbjct: 513 DSSHYNQLYSLSTL----DCSFNRIETSKGIL 540

>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 = 66.6 bits (163), Expect = 2e-11
 Identities = 51/299 (17%), Positives = 95/299 (31%), Gaps = 58/299 (19%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN-------- 555
            LS+    ++  P    P L++L +      I       ++ +L  LDLS N        
Sbjct: 311 SLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFK--KVALPSLSYLDLSRNALSFSGCC 368

Query: 556 ------------LDL-----TQLPAEMGALINLRCLNLSNTSIEELP--SEIMYLKNLKI 596
                       LDL       + A    L  L+ L+  +++++ +   S  + L+ L  
Sbjct: 369 SYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLY 428

Query: 597 LLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQI 653
           L +    +  +    +F  L SL    +      +      N       L  L     Q+
Sbjct: 429 LDISYT-NTKIDFDGIFLGLTSLNTLKMAGNSFKDN--TLSNVFANTTNLTFLDLSKCQL 485

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNL--DSHSIDLRNMMHLETLNIVECSL 711
            +IS        +F           ++ L + HN      S     +  L TL+     +
Sbjct: 486 EQIS------WGVF------DTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRI 533

Query: 712 ERVDPTFNGWTNFHNLHHLSIR------VCPVIRDLTWIREAPN-LQFLSLVNCQALSE 763
           E             +L   ++       +C   + L W++E    L  +  + C    E
Sbjct: 534 ETSKGIL--QHFPKSLAFFNLTNNSVACICEHQKFLQWVKEQKQFLVNVEQMTCATPVE 590

>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 = 61.6 bits (150), Expect = 6e-10
 Identities = 60/350 (17%), Positives = 113/350 (32%), Gaps = 64/350 (18%)

Query: 516 PETPCPHLQTLLVRFTV------LEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGAL 568
           P +  P ++ +    T       L   P     S    K +DLS+N  L  L +      
Sbjct: 1   PGSLNPCIEVV-PNITYQCMDQKLSKVPDDIPSS---TKNIDLSFN-PLKILKSYSFSNF 55

Query: 569 INLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST 627
             L+ L+LS   IE +  +    L +L  L+L G           FS L SL+      T
Sbjct: 56  SELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP-IQSFSPGSFSGLTSLENLVAVET 114

Query: 628 ELIELHRMPPNQTTILDELECLGNQIYEISI--TLGSASALFKINFSWKLCSCIKRLTIM 685
           +L  L   P  Q   L +L    N I+   +     + + L  ++ S             
Sbjct: 115 KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLS------------- 161

Query: 686 HN----LDSHSID-LRNM-MHLETLNIVECSLERVDP-TFNGWTNFHNLHHLSIRVCPVI 738
           +N    +  + +  LR       +L++    ++ +    F G      LH L++R     
Sbjct: 162 YNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQG----IKLHELTLRGNFNS 217

Query: 739 RDLTW--IREAPNLQFLSLVNCQALSEIIESAGSSEVAE------------SHNYFAYLM 784
            ++    ++    L    L+  +   E         + E            ++       
Sbjct: 218 SNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDD 277

Query: 785 VIDLDSLPSLKRI---------CHGTMPFPSLQNVSVTNCPNLRELPFNF 825
           ++    L ++  +                   Q++S+  C  L++ P   
Sbjct: 278 IVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRC-QLKQFPTLD 326

>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 = 83.2 bits (206), Expect = 1e-16
 Identities = 57/350 (16%), Positives = 111/350 (31%), Gaps = 32/350 (9%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L  + I Y+       C +LQ L+++ + +       F S+G+L+ LDLS N  L+ 
Sbjct: 30  SLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-HLSS 88

Query: 561 LPAEM-GALINLRCLNLSNTSIEELP--SEIMYLKNLKILLLDGMRHFHLIPARVFSSLL 617
           L +   G L +L+ LNL     + L   S    L NL+ L +  +  F  I    F+ L 
Sbjct: 89  LSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLT 148

Query: 618 SLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCS 677
           SL    + +  L             +  L    ++   +      A  L  + +     +
Sbjct: 149 SLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLL--EIFADILSSVRYLELRDT 206

Query: 678 CIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV 737
            + R                 +      + + S   +            +          
Sbjct: 207 NLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCT---- 262

Query: 738 IRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRI 797
           +  L     + +     L   + ++          +     Y  Y +      L  +KRI
Sbjct: 263 LNGLGDFNPSESDVVSELGKVETVT-------IRRLHIPQFYLFYDLSTVYSLLEKVKRI 315

Query: 798 -----------CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIR 836
                      C  +    SL+ + ++    + E      + K +  S++
Sbjct: 316 TVENSKVFLVPCSFSQHLKSLEFLDLSEN-LMVEEYLKNSACKGAWPSLQ 364

>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 = 74.0 bits (182), Expect = 9e-14
 Identities = 39/252 (15%), Positives = 83/252 (32%), Gaps = 23/252 (9%)

Query: 497 DSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNL 556
           +S+ E  +L  +   +  +    C          +  ++           ++ L +    
Sbjct: 238 ESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFY 297

Query: 557 DLTQLPAEMGALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDG--MRHFHLIPARVF 613
               L      L  ++ + + N+ +  +P     +LK+L+ L L    M   +L  +   
Sbjct: 298 LFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK 357

Query: 614 SSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISITLGSASALFKIN 670
            +  SL+   L    L  + +        L  L  L    N  + +  +      +  +N
Sbjct: 358 GAWPSLQTLVLSQNHLRSMQKT-GEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLN 416

Query: 671 --------FSWKLCSCIKRLTIMHN-LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGW 721
                       +   ++ L + +N LDS S+ L     L+ L I    L+ +       
Sbjct: 417 LSSTGIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPR---LQELYISRNKLKTLPD----A 469

Query: 722 TNFHNLHHLSIR 733
           + F  L  + I 
Sbjct: 470 SLFPVLLVMKIS 481

>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 = 73.6 bits (181), Expect = 1e-13
 Identities = 53/303 (17%), Positives = 98/303 (32%), Gaps = 36/303 (11%)

Query: 546 ALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRH 604
           A  V D       T +P+  G    ++ L+LS   I  +    +    NL++L+L     
Sbjct: 6   ASGVCDGRSR-SFTSIPS--GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKS-SR 61

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT--LGS 662
            + I    F SL SL+   L    L  L        + L  L  +GN    + +T    +
Sbjct: 62  INTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPN 121

Query: 663 ASALFKINFS-WKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDP-TFNG 720
            + L  +     +  S I+R+               +  L  L I   SL      +   
Sbjct: 122 LTNLQTLRIGNVETFSEIRRID-----------FAGLTSLNELEIKALSLRNYQSQSLK- 169

Query: 721 WTNFHNLHHLSIRVCPVIRDLTWIREA-----PNLQFLSLVNCQALSEIIESAGSSEVAE 775
             +  ++HHL++ +        ++ E       ++++L L +   L+    S    +   
Sbjct: 170 --SIRDIHHLTLHLSE----SAFLLEIFADILSSVRYLELRDTN-LARFQFSPLPVDEVS 222

Query: 776 SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCP--NLRELPFNFDSAKNSLV 833
           S           L    S   +         L  V   +C    L +   +     + L 
Sbjct: 223 SPMKKLAFRGSVLTDE-SFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELG 281

Query: 834 SIR 836
            + 
Sbjct: 282 KVE 284

>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 = 57.0 bits (138), Expect = 1e-08
 Identities = 42/360 (11%), Positives = 107/360 (29%), Gaps = 88/360 (24%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNT 579
             L  L ++   L  +  +  +S+  +  L L  + +   L       L ++R L L +T
Sbjct: 148 TSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLS-ESAFLLEIFADILSSVRYLELRDT 206

Query: 580 SIEELPSEI------------MYLKNLKI-------------------------LLLDGM 602
           ++                   +  +   +                           L+G+
Sbjct: 207 NLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGL 266

Query: 603 RHFHLIPARVFSSLLSLKVFSLFSTEL--IELHRMPPNQTTILDELECL---GNQIYEIS 657
             F+   + V S L  ++  ++    +    L        ++L++++ +    ++++ + 
Sbjct: 267 GDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVP 326

Query: 658 I-TLGSASALFKINFSW--------------KLCSCIKRLTIMHN----LDSHSIDLRNM 698
                   +L  ++ S                    ++ L +  N    +      L  +
Sbjct: 327 CSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTL 386

Query: 699 MHLETLNIVECSLERVDPTFNGWTN------------------FHNLHHLSIRVCPVIRD 740
            +L +L+I   +   +  +                           L  L +     +  
Sbjct: 387 KNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLDVSNNN-LDS 445

Query: 741 LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE---SHNYFAYLMVIDLDSLPSLKRI 797
            +     P LQ L +   + L  + +++    +     S N    +     D L SL++I
Sbjct: 446 FS--LFLPRLQELYISRNK-LKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKI 502

>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 = 55.1 bits (133), Expect = 7e-08
 Identities = 24/123 (19%), Positives = 51/123 (41%), Gaps = 11/123 (8%)

Query: 504 RLSLWGSSIEYLPETPC--PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
            L +  ++   +P++      ++ L +  T + +      ++   L+VLD+S N +L   
Sbjct: 391 SLDISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQT---LEVLDVSNN-NLDSF 446

Query: 562 PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV 621
                 L  L+ L +S   ++ LP        L ++ +   +    +P  +F  L SL+ 
Sbjct: 447 SLF---LPRLQELYISRNKLKTLPDA-SLFPVLLVMKISRNQ-LKSVPDGIFDRLTSLQK 501

Query: 622 FSL 624
             L
Sbjct: 502 IWL 504

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

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 7/98 (7%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
           L+L  + I  +       L+ L V    L+ F       +  L+ L +S N  L  LP  
Sbjct: 415 LNLSSTGIRVVKTCIPQTLEVLDVSNNNLDSFS----LFLPRLQELYISRNK-LKTLPDA 469

Query: 565 MGALINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDG 601
                 L  + +S   ++ +P  I   L +L+ + L  
Sbjct: 470 -SLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLHT 506

>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 = 80.9 bits (200), Expect = 2e-16
 Identities = 56/323 (17%), Positives = 99/323 (30%), Gaps = 60/323 (18%)

Query: 486 QRSSDCTNKSADSWREDF-----RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFP 537
                 ++ S +S           L L  + I Y+       C +LQ L++    +    
Sbjct: 33  NGICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIE 92

Query: 538 HRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEIM--YLKNL 594
              F S+G+L+ LDLSYN  L+ L +     L +L  LNL     + L    +  +L  L
Sbjct: 93  EDSFSSLGSLEHLDLSYNY-LSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKL 151

Query: 595 KILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY 654
           +IL +  M  F  I  + F+ L  L+   + +++L             +  L     Q  
Sbjct: 152 QILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI 211

Query: 655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERV 714
            +                          + +  L+    DL      E            
Sbjct: 212 LLL------EIFV------------DVTSSVECLELRDTDLDTFHFSELSTGE------- 246

Query: 715 DPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVA 774
               N         ++ I    + + +  + +   L  L     Q L  + +        
Sbjct: 247 ---TNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQ-LKSVPDGI------ 296

Query: 775 ESHNYFAYLMVIDLDSLPSLKRI 797
                         D L SL++I
Sbjct: 297 -------------FDRLTSLQKI 306

>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 = 54.4 bits (131), Expect = 8e-08
 Identities = 17/133 (12%), Positives = 46/133 (34%), Gaps = 12/133 (9%)

Query: 505 LSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN----LD 557
           L +  S ++           ++  L++      +    F +   +++ L+L         
Sbjct: 179 LEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFH 238

Query: 558 LTQLPAEMGA----LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVF 613
            ++L              R + +++ S+ ++   +  +  L  L     +    +P  +F
Sbjct: 239 FSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQ-LKSVPDGIF 297

Query: 614 SSLLSLKVFSLFS 626
             L SL+   L +
Sbjct: 298 DRLTSLQKIWLHT 310

>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 = 82.2 bits (203), Expect = 2e-16
 Identities = 52/380 (13%), Positives = 113/380 (29%), Gaps = 65/380 (17%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
              +  SS++           +++ L +    L             L++L+LS N+ L +
Sbjct: 14  IEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-LYE 72

Query: 561 LPA------------------EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGM 602
                                E+    ++  L+ +N +I  +       +  K + L   
Sbjct: 73  TLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSR--GQGKKNIYLANN 130

Query: 603 RHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISIT 659
           +   ++          ++   L   E+  ++          D LE L    N IY++   
Sbjct: 131 K-ITMLRDLDEGCRSRVQYLDLKLNEIDTVN--FAELAASSDTLEHLNLQYNFIYDVK-- 185

Query: 660 LGSASALFKINFSWKLCSCIKRLTIMHN-LDSHSIDLRNMMHLETLNIVECSLERVDPTF 718
                 +            +K L +  N L     + ++   +  +++    L  ++   
Sbjct: 186 ----GQVVFAK--------LKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKAL 233

Query: 719 NGWTNFHNLHHLSIR----VCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSS--E 772
                  NL H  +R     C  +RD  +  +   +Q ++    + L+   E   +    
Sbjct: 234 RFSQ---NLEHFDLRGNGFHCGTLRD--FFSKNQRVQTVAKQTVKKLTGQNEEECTVPTL 288

Query: 773 VAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ----NVSVTNCPNLRELPFNFDSA 828
                     L     D L +LKR  H  +     +         N    RE+    D+ 
Sbjct: 289 GHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQREI----DAL 344

Query: 829 KNSLVSI-RGSAEWWEQLQW 847
           K    ++        +    
Sbjct: 345 KEQYRTVIDQVTLRKQAKIT 364

>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 = 68.7 bits (168), Expect = 3e-12
 Identities = 27/229 (11%), Positives = 67/229 (29%), Gaps = 16/229 (6%)

Query: 505 LSLWGSSIEYLPE----TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           L L  + I+ +           L+ L +++  +     +       LK LDLS N  L  
Sbjct: 149 LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTLDLSSN-KLAF 205

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLK 620
           +  E  +   +  ++L N  +  +   + + +NL+   L G           FS    ++
Sbjct: 206 MGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQ 265

Query: 621 VFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK 680
             ++    + +L      + T+            ++           ++    +    + 
Sbjct: 266 --TVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPA-----PFADRLIALKRKEHALL 318

Query: 681 RLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLH 728
                   +    +  N      ++ ++     V             L 
Sbjct: 319 SGQGS-ETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLE 366

>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 = 58.3 bits (141), Expect = 5e-09
 Identities = 48/337 (14%), Positives = 108/337 (32%), Gaps = 58/337 (17%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGA-LINLRCLNLSNTSIEEL-PSEIMYLKNLKILL 598
            ++    K+  ++ +  L Q  A +     N++ L+LS   + ++  +++     L++L 
Sbjct: 6   KQNGNRYKIEKVTDS-SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLN 64

Query: 599 LDGMRHFHLIPARVFSSLLSLKVFSL---------FSTELIELH-------RMPPNQTTI 642
           L     +  +      SL +L+   L             +  LH       R+  ++   
Sbjct: 65  LSSNVLYETLD---LESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQG 121

Query: 643 LDELECLGNQIYEI-SITLGSASALFKINFS------------WKLCSCIKRLTIMHNLD 689
              +    N+I  +  +  G  S +  ++                    ++ L + +N  
Sbjct: 122 KKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFI 181

Query: 690 SHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREA-- 747
                      L+TL++    L  + P F    +   +  +S+R       L  I +A  
Sbjct: 182 YDVKGQVVFAKLKTLDLSSNKLAFMGPEF---QSAAGVTWISLRNN----KLVLIEKALR 234

Query: 748 --PNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFP 805
              NL+   L               S+          +  +   ++  L          P
Sbjct: 235 FSQNLEHFDLRGNG-FHCGTLRDFFSKNQR-------VQTVAKQTVKKLTGQNEEECTVP 286

Query: 806 SLQNVSVTNCPNLRELPF----NFDSAKNSLVSIRGS 838
           +L +     C +L              +++L+S +GS
Sbjct: 287 TLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGS 323

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

 Score = 48.7 bits (116), Expect = 6e-06
 Identities = 22/174 (12%), Positives = 43/174 (24%), Gaps = 11/174 (6%)

Query: 474 LWLASNESKILVQRSSDCTNKSADSWREDFRLSLWG-SSIEYLPETPCPHLQTLLVRFTV 532
             L  N                    +    ++      +    E  C            
Sbjct: 242 FDLRGN------GFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYC 295

Query: 533 LEIFPHRFFESMGALKVLDLSY----NLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI 588
            E  P  F + + ALK  + +       +  +L  E       R ++        +  ++
Sbjct: 296 CEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQREIDALKEQYRTVIDQV 355

Query: 589 MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTI 642
              K  KI L    +      +    +   L      +   IEL      Q+ +
Sbjct: 356 TLRKQAKITLEQKKKALDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQSPL 409

>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 = 82.7 bits (204), Expect = 2e-16
 Identities = 56/357 (15%), Positives = 123/357 (34%), Gaps = 47/357 (13%)

Query: 486 QRSSDCTNKSADSWREDFRLSLWGSSI-EYLPETPCPHLQTLLVRFTVLEIFPHRFFESM 544
           +     +N   D    D  + +    +     +    + + +  + + +   P    +S 
Sbjct: 15  EYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSF 74

Query: 545 GALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGM 602
             +++L+L+    + ++          ++ L +   +I  LP  +   +  L +L+L+  
Sbjct: 75  RQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN 133

Query: 603 RHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGS 662
                +P  +F +   L   S+ +  L  +       TT L  L+   N++    + L  
Sbjct: 134 D-LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL--THVDLSL 190

Query: 663 ASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWT 722
             +LF  N S             +NL S    L   + +E L+    S+  V        
Sbjct: 191 IPSLFHANVS-------------YNLLS---TLAIPIAVEELDASHNSINVVRGPV---- 230

Query: 723 NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESA--GSSEVAE---SH 777
               L  L ++    + D  W+   P L  + L   + L +I+         +     S+
Sbjct: 231 -NVELTILKLQHNN-LTDTAWLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISN 287

Query: 778 NYFAYLMVIDLDSLPSLKR----------ICHGTMPFPSLQNVSVTNCPNLRELPFN 824
           N    L  +    +P+LK           +      F  L+N+ + +  ++  L  +
Sbjct: 288 NRLVALN-LYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLS 342

>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 = 66.5 bits (162), Expect = 2e-11
 Identities = 24/118 (20%), Positives = 43/118 (36%), Gaps = 3/118 (2%)

Query: 504 RLSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
            L L  +++         P L  + + +  LE   +  F  M  L+ L +S N  L  L 
Sbjct: 236 ILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNR-LVALN 294

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLK 620
                +  L+ L+LS+  +  +         L+ L LD       +      +L +L 
Sbjct: 295 LYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS-IVTLKLSTHHTLKNLT 351

>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 = 81.6 bits (202), Expect = 3e-16
 Identities = 62/338 (18%), Positives = 121/338 (35%), Gaps = 59/338 (17%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
                 ++  L +        L +    L   P    E    L+ L  S N  LT+LP  
Sbjct: 55  GEQREMAVSRLRDCLDRQAHELELNNLGLSSLP----ELPPHLESLVASCN-SLTELPEL 109

Query: 565 MGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSL 624
             +L +L   N +  ++ +LP        L+ L +   +    +P     +   LK+  +
Sbjct: 110 PQSLKSLLVDNNNLKALSDLPP------LLEYLGVSNNQ-LEKLP--ELQNSSFLKIIDV 160

Query: 625 FSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW-------KLCS 677
            +  L +L  +PP+    L+ +    NQ+ E+   L +   L  I            L  
Sbjct: 161 DNNSLKKLPDLPPS----LEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPDLPL 215

Query: 678 CIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP- 736
            ++ +   +N+     +L+N+  L T+      L+ +           N+    +   P 
Sbjct: 216 SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEAL-NVRDNYLTDLPE 274

Query: 737 VIRDLTWI-----------REAPNLQFLSLVNCQALSEIIESAGSSEVAE-SHNYFAYLM 784
           + + LT++              PNL +L+  + + +  + +   S E    S+N      
Sbjct: 275 LPQSLTFLDVSENIFSGLSELPPNLYYLNASSNE-IRSLCDLPPSLEELNVSNNK----- 328

Query: 785 VIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP 822
              L  LP+L          P L+ +  +   +L E+P
Sbjct: 329 ---LIELPAL---------PPRLERLIASFN-HLAEVP 353

>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 = 61.6 bits (150), Expect = 5e-10
 Identities = 45/282 (15%), Positives = 93/282 (32%), Gaps = 47/282 (16%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHF 605
           L+      + +LT++P E   + +      + +  E   P      + + +  L      
Sbjct: 13  LQEPLRHSS-NLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRD---- 67

Query: 606 HLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASA 665
                             L +  L  L  +PP+    L+ L    N + E+     S  +
Sbjct: 68  --------CLDRQAHELELNNLGLSSLPELPPH----LESLVASCNSLTELPELPQSLKS 115

Query: 666 LFKINFS----WKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGW 721
           L   N +      L   ++ L + +N      +L+N   L+ +++   SL+++       
Sbjct: 116 LLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSL 175

Query: 722 TNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGS-SEVAESHNYF 780
                  +  +   P +++L        L  +   N   L ++ +   S   +   +N  
Sbjct: 176 EFI-AAGNNQLEELPELQNLP------FLTAIYADNNS-LKKLPDLPLSLESIVAGNN-- 225

Query: 781 AYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP 822
                  L+ LP L+         P L  +   N   L+ LP
Sbjct: 226 ------ILEELPELQN-------LPFLTTIYADNN-LLKTLP 253

>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 = 60.0 bits (146), Expect = 2e-09
 Identities = 40/196 (20%), Positives = 72/196 (36%), Gaps = 30/196 (15%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
            L +  +    L E P P+L  L      +        +   +L+ L++S N  L +LPA
Sbjct: 281 FLDVSENIFSGLSELP-PNLYYLNASSNEIRSLC----DLPPSLEELNVSNNK-LIELPA 334

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
                  L  L  S   + E+P      +NLK L ++        P  +  S+  L++  
Sbjct: 335 LPP---RLERLIASFNHLAEVPELP---QNLKQLHVEYNP-LREFPD-IPESVEDLRM-- 384

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALF----KIN----FSWKL 675
             ++ L E+  +P N    L +L    N + E      S   L     ++     F+ + 
Sbjct: 385 --NSHLAEVPELPQN----LKQLHVETNPLREFPDIPESVEDLRMNSERVVDPYEFAHET 438

Query: 676 CSCIKRLTIMHNLDSH 691
              ++     H+   H
Sbjct: 439 TDKLEDDVFEHHHHHH 454

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

 Score = 80.9 bits (200), Expect = 3e-16
 Identities = 53/345 (15%), Positives = 103/345 (29%), Gaps = 59/345 (17%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L+L    IE +          +Q L + F  +   P   F+++  L VL L  N DL+ 
Sbjct: 73  LLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSS 131

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           LP  +      L  L++SN ++E +  +      +L+ L L   R    +   +  SL  
Sbjct: 132 LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVDLSLIPSLFH 190

Query: 619 LKVFSLFSTELIELHRM-------------PPNQTTILDELECLGNQIYEISITLGSASA 665
             V     + L     +                    L  L+   N + + +  L +   
Sbjct: 191 ANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTA-WLLNYPG 249

Query: 666 LFKINFSWKLCSCIKRLTIMHN----LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGW 721
           L               + + +N    +  H      M  LE L I    L  ++      
Sbjct: 250 L-------------VEVDLSYNELEKIMYHP--FVKMQRLERLYISNNRLVALNLYGQPI 294

Query: 722 TNFHNLHHLSIRVCPVIRDLT-WIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYF 780
                L  L +     +  +     +   L+ L L +   +  +             +  
Sbjct: 295 P---TLKVLDLSHNH-LLHVERNQPQFDRLENLYLDHNS-IVTL-----------KLSTH 338

Query: 781 AYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNF 825
             L  + L               F ++   +V +     ++ +  
Sbjct: 339 HTLKNLTLSHND-WDCNSL-RALFRNVARPAVDDADQHCKIDYQL 381

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

 Score = 79.3 bits (196), Expect = 8e-16
 Identities = 51/337 (15%), Positives = 119/337 (35%), Gaps = 57/337 (16%)

Query: 515 LPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRC 573
             +    + + +  + + +   P    +S   +++L+L+    + ++          ++ 
Sbjct: 39  FEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQK 97

Query: 574 LNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL 632
           L +   +I  LP  +   +  L +L+L+       +P  +F +   L   S+ +  L  +
Sbjct: 98  LYMGFNAIRYLPPHVFQNVPLLTVLVLERND-LSSLPRGIFHNTPKLTTLSMSNNNLERI 156

Query: 633 HRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHS 692
                  TT L  L+   N++  + ++L              + S +    + +NL S  
Sbjct: 157 EDDTFQATTSLQNLQLSSNRLTHVDLSL--------------IPS-LFHANVSYNLLS-- 199

Query: 693 IDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQF 752
             L   + +E L+    S+  V            L  L ++    + D  W+   P L  
Sbjct: 200 -TLAIPIAVEELDASHNSINVVRGPV-----NVELTILKLQHNN-LTDTAWLLNYPGLVE 252

Query: 753 LSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSV 812
           + L                    S+N    +M      +  L+R+    +    L  +++
Sbjct: 253 VDL--------------------SYNELEKIMYHPFVKMQRLERL---YISNNRLVALNL 289

Query: 813 T--NCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQW 847
                P L+ L    D + N L+ +  +   +++L+ 
Sbjct: 290 YGQPIPTLKVL----DLSHNHLLHVERNQPQFDRLEN 322

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

 Score = 62.8 bits (153), Expect = 2e-10
 Identities = 37/324 (11%), Positives = 99/324 (30%), Gaps = 64/324 (19%)

Query: 547 LKVLDLSYNLDLTQLPAEMGA------LINLRCLNLSNTSIEELPSEIMY-LKNLKILLL 599
           L+   + Y++ +     ++        L N + +   N+++ +LP+ ++   + +++L L
Sbjct: 17  LQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL 76

Query: 600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI- 658
           + +     I    F+   +++   +    +  L         +L  L    N +  +   
Sbjct: 77  NDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRG 135

Query: 659 TLGSASALFKINFSWKLCSCIKRLTIMHN----LDSHSIDLRNMMHLETLNIVECSLERV 714
              +   L               L++ +N    ++  +   +    L+ L +    L  V
Sbjct: 136 IFHNTPKL-------------TTLSMSNNNLERIEDDT--FQATTSLQNLQLSSNRLTHV 180

Query: 715 DPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVA 774
           D      +   +L H ++        L+ +     ++ L   +   ++ +          
Sbjct: 181 DL-----SLIPSLFHANVSYNL----LSTLAIPIAVEELDASHNS-INVV---------- 220

Query: 775 ESHNYFAYLMVIDLDS-----------LPSLKRICHGTMPFPSLQNVSVTNCPNLRELPF 823
                   L ++ L              P L  +         +          L  L  
Sbjct: 221 -RGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYI 279

Query: 824 NFDSAKNSLVSIRGSAEWWEQLQW 847
           +     N LV++    +    L+ 
Sbjct: 280 SN----NRLVALNLYGQPIPTLKV 299

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

 Score = 82.6 bits (204), Expect = 3e-16
 Identities = 42/380 (11%), Positives = 95/380 (25%), Gaps = 84/380 (22%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
           +    S   Y                   E     +  ++  L  ++L    ++TQLP  
Sbjct: 453 IYFANSPFTYDNIAVD-WEDANSDYAKQYENEELSW-SNLKDLTDVELYNCPNMTQLPDF 510

Query: 565 MGALINLRCLNLSN----------TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFS 614
           +  L  L+ LN++                L  +      ++I  +          +    
Sbjct: 511 LYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQ 570

Query: 615 SLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---------GNQIYEISITLGSASA 665
            ++ L +                N+   L+               NQI EI     +   
Sbjct: 571 KMVKLGLLDCVH-----------NKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCA--- 616

Query: 666 LFKINFSWKLCSCIKRLTIMHN-LDS--HSIDLRNMMHLETLNIVECSLERVDP---TFN 719
                        ++ L   HN L    +  + +++  + +++     +           
Sbjct: 617 ---------FTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSM 667

Query: 720 GWTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE-- 775
                 N   +++     I+            +  + L N   ++ I E++   +     
Sbjct: 668 DDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNNL-MTSIPENSLKPKDGNYK 725

Query: 776 ----------SHNYFAYL-MVIDLDSLPSLKRICHGTMPFPSLQN-------VSVTNCPN 817
                       N    L       +LP L  +         +             N   
Sbjct: 726 NTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNM--------DVSYNCFSSFPTQPLNSSQ 777

Query: 818 LRELP--FNFDSAKNSLVSI 835
           L+        D+  N ++  
Sbjct: 778 LKAFGIRHQRDAEGNRILRQ 797

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

 Score = 74.1 bits (182), Expect = 1e-13
 Identities = 41/249 (16%), Positives = 75/249 (30%), Gaps = 31/249 (12%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRF-FESMGALKVLDLSYNLDLT 559
            L L  + IE +PE        ++ L      L+  P+ F  +S+  +  +D SYN  + 
Sbjct: 599 DLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNK-IG 657

Query: 560 QLPAEMGA------LINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDG-------MRHF 605
                +         IN   + LS   I++ P+E+      +  ++L             
Sbjct: 658 SEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSL 717

Query: 606 HLIPARVFSSLLSLKVFSLFSTELIELHR-MPPNQTTILDELECLGNQIYEISITLGSAS 664
                  + +   L    L   +L  L           L  ++   N          ++S
Sbjct: 718 KPKDG-NYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSS 776

Query: 665 ALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNF 724
            L       +  +   R+     L      +     L  L I    + +VD         
Sbjct: 777 QLKAFGIRHQRDAEGNRI-----LRQWPTGITTCPSLIQLQIGSNDIRKVDEKL-----T 826

Query: 725 HNLHHLSIR 733
             L+ L I 
Sbjct: 827 PQLYILDIA 835

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

 Score = 71.4 bits (175), Expect = 8e-13
 Identities = 34/255 (13%), Positives = 76/255 (29%), Gaps = 29/255 (11%)

Query: 540 FFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL 599
             ++ G +  L L+      ++P  +G L  L+ L+    S           +    +  
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSE 377

Query: 600 DGMRHFHLIPARVFSSLLS----LKVFSLFSTELIELHRMPPNQTTILDELE--CLGNQI 653
           +      +   ++F           +         E+  +  +    L + +   L N+I
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRI 437

Query: 654 YEISITLGSASALFKINFSW--------KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLN 705
             IS  +   + L  I F+          +             ++  +   N+  L  + 
Sbjct: 438 TFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVE 497

Query: 706 IVECS-LERVDPTFNGWTNFHNLHHLSIR------VCPVIRDLTWIREA----PNLQFLS 754
           +  C  + ++        +   L  L+I          +  D T + +     P +Q   
Sbjct: 498 LYNCPNMTQLPDFL---YDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFY 554

Query: 755 LVNCQALSEIIESAG 769
           +     L E   SA 
Sbjct: 555 MGYNN-LEEFPASAS 568

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

 Score = 60.3 bits (146), Expect = 2e-09
 Identities = 22/138 (15%), Positives = 50/138 (36%), Gaps = 13/138 (9%)

Query: 474 LWLASNESKILVQRSSDCTNKSADSWREDFRLSLWGSSIEYLPE----TPCPHLQTLLVR 529
           + L++N    + + S    + +  +      + L  + +  L +    T  P+L  + V 
Sbjct: 702 IILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVS 761

Query: 530 FTVLEIFPHRFFESMGALKVLDLSYNLDL------TQLPAEMGALINLRCLNLSNTSIEE 583
           +     FP +   +   LK   + +  D        Q P  +    +L  L + +  I +
Sbjct: 762 YNCFSSFPTQPL-NSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRK 820

Query: 584 LPSEIMYLKNLKILLLDG 601
           +  ++     L IL +  
Sbjct: 821 VDEKL--TPQLYILDIAD 836

>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 = 80.4 bits (199), Expect = 1e-15
 Identities = 55/353 (15%), Positives = 106/353 (30%), Gaps = 39/353 (11%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
                  +  +P+    ++  L +    L   P   F     L  LD+ +N  +++L  E
Sbjct: 9   ADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPE 67

Query: 565 M-GALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF 622
           +   L  L+ LNL +  + +L  +   +  NL  L L        I    F    +L   
Sbjct: 68  LCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITL 126

Query: 623 SLFSTELIELHRMPPNQTTILDELECLGNQIYEIS---ITLGSASALFKINFSW----KL 675
            L    L         Q   L EL    N+I  +    + + + S+L K+  S     + 
Sbjct: 127 DLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEF 186

Query: 676 C-SCIKRLT-----------IMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTN 723
              C   +            +  +L            +  L++    L     T      
Sbjct: 187 SPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLK 246

Query: 724 FHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSL-------------VNCQALSEIIESA 768
           + NL  L +     +  +        P L++  L                  +  +    
Sbjct: 247 WTNLTMLDLSYNN-LNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 305

Query: 769 GSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
             ++ + S      +       L  L+ +       P +++   T   NL+ L
Sbjct: 306 SFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYL 358

>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 = 78.5 bits (194), Expect = 4e-15
 Identities = 67/357 (18%), Positives = 122/357 (34%), Gaps = 56/357 (15%)

Query: 505 LSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
           L+L  + +  L +     C +L  L +    ++   +  F     L  LDLS+N  L+  
Sbjct: 78  LNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNG-LSST 136

Query: 562 PAEM-GALINLRCLNLSNTSIEELPSE---IMYLKNLKILLLDGMRHFHLIPARVFSSLL 617
                  L NL+ L LSN  I+ L SE   I    +LK L L             F ++ 
Sbjct: 137 KLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSS-NQIKEFSPGCFHAIG 195

Query: 618 SLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISITLGSASALFKINFSWK 674
            L    L + +L                +  L    +Q+   S T           F   
Sbjct: 196 RLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTT----------FLGL 245

Query: 675 LCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLH--- 728
             + +  L + +N  +   +     +  LE   +   +++ +   + +G  N   L+   
Sbjct: 246 KWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 305

Query: 729 -----HLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYL 783
                 +S+   P I D +  +    L+ L++ +   +  I  +  +            L
Sbjct: 306 SFTKQSISLASLPKIDDFS-FQWLKCLEHLNMEDND-IPGIKSNMFTG--------LINL 355

Query: 784 MVIDLDS-LPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSA 839
             + L +   SL+ + + T  F SL +        L  L    +  KN +  I   A
Sbjct: 356 KYLSLSNSFTSLRTLTNET--FVSLAH------SPLHIL----NLTKNKISKIESDA 400

>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 = 76.6 bits (189), Expect = 2e-14
 Identities = 69/372 (18%), Positives = 131/372 (35%), Gaps = 48/372 (12%)

Query: 504 RLSLWGSSIEYLPET-----PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDL 558
            LSL  S +     T        +L  L + +  L +  +  F  +  L+   L YN   
Sbjct: 226 NLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQ 285

Query: 559 TQLPAEMGALINLRCLNLSN---------TSIEEL-PSEIMYLKNLKILLLDGMRHFHLI 608
                 +  L N+R LNL            S+ ++      +LK L+ L ++       I
Sbjct: 286 HLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGI 344

Query: 609 PARVFSSLLSLKVFSL----FSTELIELHRMPPNQTTILDELECLGNQIYEI-SITLGSA 663
            + +F+ L++LK  SL     S   +          + L  L    N+I +I S      
Sbjct: 345 KSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWL 404

Query: 664 SALFKINFS------------WKLCSCIKRLTIMHN--LDSHSIDLRNMMHLETLNIVEC 709
             L  ++              W+    I  + + +N  L         +  L+ L +   
Sbjct: 405 GHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRV 464

Query: 710 SLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREA-----PNLQFLSLVNCQALSEI 764
           +L+ VD + + +    NL  L +       ++  I +        L+ L L +   L+ +
Sbjct: 465 ALKNVDSSPSPFQPLRNLTILDLSNN----NIANINDDMLEGLEKLEILDLQHNN-LARL 519

Query: 765 IESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMP-FPSLQNVSVTNCPNLRELPF 823
            + A            ++L +++L+S      I          L+ + +    NL  LP 
Sbjct: 520 WKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDLFELKIIDLGLN-NLNTLPA 577

Query: 824 NFDSAKNSLVSI 835
           +  + + SL S+
Sbjct: 578 SVFNNQVSLKSL 589

>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 = 70.0 bits (172), Expect = 2e-12
 Identities = 62/321 (19%), Positives = 104/321 (32%), Gaps = 37/321 (11%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEEL-PSEIMYLKNLKILLLDGMRHF 605
            +V D S+   LTQ+P       N+  LNL++  +  L  +       L  L +      
Sbjct: 6   HEVADCSHL-KLTQVPD--DLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN-TI 61

Query: 606 HLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI-SITLGSAS 664
             +   +   L  LKV +L   EL +L        T L EL  + N I +I +       
Sbjct: 62  SKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQK 121

Query: 665 ALFKINFSW--------KLCSCIKRLTIM-------HNLDSHSIDLRNMMHLETLNIVEC 709
            L  ++ S              ++ L  +         L S  +D+     L+ L +   
Sbjct: 122 NLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSN 181

Query: 710 SLERVDPTFNGWTNFHNLHHLSIR----VCPVIRDLTWIREAPNLQFLSLVNCQALSEII 765
            ++   P    +     L  L +        +   L       +++ LSL N Q LS   
Sbjct: 182 QIKEFSP--GCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQ-LSTTS 238

Query: 766 ESAGSSEVAE-------SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNL 818
            +               S+N    +       LP L+           L + S+    N+
Sbjct: 239 NTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNV 298

Query: 819 REL--PFNFDSAKNSLVSIRG 837
           R L    +F     SL S+  
Sbjct: 299 RYLNLKRSFTKQSISLASLPK 319

>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 = 68.1 bits (167), Expect = 8e-12
 Identities = 62/346 (17%), Positives = 122/346 (35%), Gaps = 39/346 (11%)

Query: 505 LSLWGSSIEYLPET-----PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
           L L  + I+ L            L+ L +    ++ F    F ++G L  L L+      
Sbjct: 150 LLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGP 209

Query: 560 QLPAEMGALIN---LRCLNLSNTSIEELPSEI---MYLKNLKILLLDGMRHFHLIPARVF 613
            L  ++   +    +R L+LSN+ +    +     +   NL +L L      +++    F
Sbjct: 210 SLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNN-LNVVGNDSF 268

Query: 614 SSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW 673
           + L  L+ F L    +  L     +    L  +  L  +      ++  AS     +FS+
Sbjct: 269 AWLPQLEYFFLEYNNIQHL---FSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSF 325

Query: 674 KLCSCIKRLTIMHNL--DSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHN--LHH 729
           +   C++ L +  N      S     +++L+ L++          T   + +  +  LH 
Sbjct: 326 QWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHI 385

Query: 730 LSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIES---AGSSEVAE---SHNYFA 781
           L++     I  +         +L+ L L   + + + +      G   + E   S+N + 
Sbjct: 386 LNLTKNK-ISKIESDAFSWLGHLEVLDLGLNE-IGQELTGQEWRGLENIFEIYLSYNKYL 443

Query: 782 YLMVIDLDSLPSLKRI------CHGTMPFPSLQNVSVTNCPNLREL 821
            L       +PSL+R+             PS          NL  L
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPS----PFQPLRNLTIL 485

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

 Score = 56.2 bits (136), Expect = 3e-08
 Identities = 24/133 (18%), Positives = 50/133 (37%), Gaps = 14/133 (10%)

Query: 505 LSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIF--------PHRFFESMGALKVLDLS 553
           L L  ++I  + +        L+ L ++   L           P  F + +  L +L+L 
Sbjct: 485 LDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLE 544

Query: 554 YNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPAR 611
            N    ++P E+   L  L+ ++L   ++  LP+ +     +LK L L       +    
Sbjct: 545 SN-GFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKV 603

Query: 612 VFSSLLSLKVFSL 624
              +  +L    +
Sbjct: 604 FGPAFRNLTELDM 616

>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 = 50.4 bits (121), Expect = 2e-06
 Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 4/85 (4%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSN 578
             HL  L +     +  P   F+ +  LK++DL  N  L  LPA +    ++L+ LNL  
Sbjct: 535 LSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNN-LNTLPASVFNNQVSLKSLNLQK 593

Query: 579 TSIEELPSEIMY--LKNLKILLLDG 601
             I  +  ++     +NL  L +  
Sbjct: 594 NLITSVEKKVFGPAFRNLTELDMRF 618

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 78.1 bits (193), Expect = 1e-15
 Identities = 50/267 (18%), Positives = 90/267 (33%), Gaps = 34/267 (12%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L  + I  L +       HL  L++    +     + F  +  L+ L +S N  L +
Sbjct: 58  LLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNH-LVE 116

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMR-HFHLIPARVFSSLLS 618
           +P       +L  L + +  I ++P  +   L+N+  + + G            F   L 
Sbjct: 117 IPP--NLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDG-LK 173

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSC 678
           L    +      +L  +P +    L+EL    N+I  I                    S 
Sbjct: 174 LNYLRISEA---KLTGIPKDLPETLNELHLDHNKIQAIE------------LEDLLRYSK 218

Query: 679 IKRLTIMHN----LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFH--NLHHLSI 732
           + RL + HN    +++ S  L  +  L  L++    L RV              LH  +I
Sbjct: 219 LYRLGLGHNQIRMIENGS--LSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNI 276

Query: 733 RVCP--VIRDLTWIREAPNLQFLSLVN 757
                     + +  +      +SL N
Sbjct: 277 TKVGVNDFCPVGFGVKRAYYNGISLFN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 57.7 bits (140), Expect = 5e-09
 Identities = 24/141 (17%), Positives = 48/141 (34%), Gaps = 10/141 (7%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
           L +  + +  +P+     L  L +    ++            L  L L +N  +  +   
Sbjct: 177 LRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ-IRMIENG 235

Query: 565 M-GALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSL------L 617
               L  LR L+L N  +  +P+ +  LK L+++ L        +    F  +       
Sbjct: 236 SLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGVKRA 294

Query: 618 SLKVFSLFSTELIELHRMPPN 638
                SLF+   +    + P 
Sbjct: 295 YYNGISLFNNP-VPYWEVQPA 314

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 53.1 bits (128), Expect = 1e-07
 Identities = 55/313 (17%), Positives = 105/313 (33%), Gaps = 60/313 (19%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHF 605
           L+V+  S +L L  +P E+    +   L+L N  I EL  +    L++L  L+L      
Sbjct: 35  LRVVQCS-DLGLKAVPKEISP--DTTLLDLQNNDISELRKDDFKGLQHLYALVLVN-NKI 90

Query: 606 HLIPARVFSSLLSLKVFSLFS-----------TELIELH-------RMPPNQTTILDELE 647
             I  + FS L  L+   +             + L+EL        ++P    + L  + 
Sbjct: 91  SKIHEKAFSPLRKLQKLYISKNHLVEIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMN 150

Query: 648 CL---GNQIYEISITLG--SASALFKINFSWKLCSCI-----KRLTIMHNLDSHSI---- 693
           C+   GN +       G      L  +  S    + I     + L  +H LD + I    
Sbjct: 151 CIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELH-LDHNKIQAIE 209

Query: 694 --DLRNMMHLETLNIVECSLERVDP-TFNGWTNFH--NLHHLSIRVCPVIRDLTWIREAP 748
             DL     L  L +    +  ++  + +        +L +  +   P       + +  
Sbjct: 210 LEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVP-----AGLPDLK 264

Query: 749 NLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ 808
            LQ + L     ++++                AY   I L + P         +P+  +Q
Sbjct: 265 LLQVVYLHTNN-ITKV--GVNDFCPVGFGVKRAYYNGISLFNNP---------VPYWEVQ 312

Query: 809 NVSVTNCPNLREL 821
             +     +   +
Sbjct: 313 PATFRCVTDRLAI 325

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

 Score = 77.1 bits (190), Expect = 5e-15
 Identities = 56/275 (20%), Positives = 98/275 (35%), Gaps = 40/275 (14%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L+L  + I+ +         HL+ L +    +       F  +  L  L+L  N  LT 
Sbjct: 68  LLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDN-RLTT 126

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +P      L  L+ L L N  IE +PS     + +L+ L L  ++    I    F  L +
Sbjct: 127 IPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSN 186

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISITLGSASALFKINFSWKL 675
           L+  +L    L E+  + P     L +L+ L   GN +  I          F       L
Sbjct: 187 LRYLNLAMCNLREIPNLTP-----LIKLDELDLSGNHLSAIR------PGSF-----QGL 230

Query: 676 CSCIKRLTIMHNLDSHSID---LRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLHHLS 731
              +++L ++ +     I+     N+  L  +N+   +L  +    F       +L  + 
Sbjct: 231 MH-LQKLWMIQSQIQV-IERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLH---HLERIH 285

Query: 732 IRVCP-----VIRDL-TWIREAPNLQFLSLVNCQA 760
           +   P      I  L  WI++           C  
Sbjct: 286 LHHNPWNCNCDILWLSWWIKDMAPSNTACCARCNT 320

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

 Score = 77.4 bits (191), Expect = 8e-15
 Identities = 68/377 (18%), Positives = 129/377 (34%), Gaps = 41/377 (10%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L  + + +L        P LQ L +    ++      ++S+  L  L L+ N  +  
Sbjct: 32  NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQS 90

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           L       L +L+ L    T++  L +  + +LK LK L +             FS+L +
Sbjct: 91  LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN 150

Query: 619 LKVFSLFSTELIELH----RMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS-- 672
           L+   L S ++  ++    R+      +   L+   N +  I         L K+     
Sbjct: 151 LEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNN 210

Query: 673 -------WKLCSCIKRLTIMHNLDS--------HSIDLRNMMHLETLNIVECSLERVDPT 717
                        +  L +   +             D   +  L  L I E  L  +D  
Sbjct: 211 FDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYY 270

Query: 718 FNGWTN-FHNLHHLSIRVCPVIRDLTWIREAP---NLQFLSLVNCQALSEIIESAGS-SE 772
            +   + F+ L ++S     V   +  +++       Q L LVNC+          S   
Sbjct: 271 LDDIIDLFNCLTNVSSFSL-VSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKR 329

Query: 773 VAESHNYFAYLMVIDLDSLPSLKRI--CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKN 830
           +  + N            LPSL+ +      + F    + S     +L+ L    D + N
Sbjct: 330 LTFTSNKGGNA--FSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL----DLSFN 383

Query: 831 SLVSIRGSAEWWEQLQW 847
            ++++  +    EQL+ 
Sbjct: 384 GVITMSSNFLGLEQLEH 400

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

 Score = 74.0 bits (182), Expect = 8e-14
 Identities = 51/331 (15%), Positives = 98/331 (29%), Gaps = 34/331 (10%)

Query: 504 RLSLWGSSIEYLPETP---CPHLQTLLVRFTVL-EIFPHRFFESMGALKVLDLSYNLDLT 559
           +L    +++  L   P      L+ L V   ++       +F ++  L+ LDLS N  + 
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQ 162

Query: 560 QLPAEM-GALINLRC----LNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFS 614
            +       L  +      L+LS   +  +         L  L L        +      
Sbjct: 163 SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQ 222

Query: 615 SLLSLKVFSLFSTELIE---LHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINF 671
            L  L+V  L   E      L +   +    L  L     ++  +   L     LF    
Sbjct: 223 GLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNC-- 280

Query: 672 SWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS 731
                + +   +++        D       + L +V C   +                  
Sbjct: 281 ----LTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNK 336

Query: 732 IRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL 791
                   DL      P+L+FL L     LS           ++S      L  +DL   
Sbjct: 337 GGNAFSEVDL------PSLEFLDLSRNG-LSFK------GCCSQSDFGTTSLKYLDLSFN 383

Query: 792 PSLKRICHGTMPFPSLQNVSVTNCPNLRELP 822
             +  +    +    L+++   +  NL+++ 
Sbjct: 384 -GVITMSSNFLGLEQLEHLDFQHS-NLKQMS 412

>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 = 70.5 bits (173), Expect = 1e-12
 Identities = 46/255 (18%), Positives = 81/255 (31%), Gaps = 28/255 (10%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNL--DLTQL 561
            L L        P      L+ L                 + +L+ LDLS N        
Sbjct: 308 HLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFS--EVDLPSLEFLDLSRNGLSFKGCC 365

Query: 562 PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV 621
                   +L+ L+LS   +  + S  + L+ L+ L         +    VF SL +L  
Sbjct: 366 SQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIY 425

Query: 622 FSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI--TLGSASALFKINFSW-KLCSC 678
             +  T          N  + L+ L+  GN   E  +         L  ++ S  +L   
Sbjct: 426 LDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ- 484

Query: 679 IKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIR----- 733
                    L   +    ++  L+ LN+    L+ V      +    +L  + +      
Sbjct: 485 ---------LSPTA--FNSLSSLQVLNMASNQLKSVPDGI--FDRLTSLQKIWLHTNPWD 531

Query: 734 -VCPVIRDLT-WIRE 746
             CP I  L+ W+ +
Sbjct: 532 CSCPRIDYLSRWLNK 546

>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 = 60.1 bits (146), Expect = 2e-09
 Identities = 56/299 (18%), Positives = 101/299 (33%), Gaps = 25/299 (8%)

Query: 547 LKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRH 604
            K LDLS+N  L  L +    +   L+ L+LS   I+ +       L +L  L+L G   
Sbjct: 30  TKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP- 87

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI--TLGS 662
              +    FS L SL+      T L  L   P      L EL    N I    +     +
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSN 147

Query: 663 ASALFKINFSWKLCSCIKR--LTIMHNLDSHSIDLR----NMMHLETLNIVECSLERVDP 716
            + L  ++ S      I    L ++H +   ++ L      M  ++     E  L ++  
Sbjct: 148 LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTL 207

Query: 717 TFNGWT------NFHNLHHLSIR--VCPVIRDLTWIREAPNLQFLSLVN--CQALSEIIE 766
             N  +          L  L +   V    R+   + +        L N   +       
Sbjct: 208 RNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYL 267

Query: 767 SAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNF 825
                ++ +  N    +    L S+ +++R+   +      Q++ + NC    + P   
Sbjct: 268 DYYLDDIIDLFNCLTNVSSFSLVSV-TIERVKDFSY-NFGWQHLELVNC-KFGQFPTLK 323

>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 = 55.5 bits (134), Expect = 5e-08
 Identities = 39/276 (14%), Positives = 90/276 (32%), Gaps = 33/276 (11%)

Query: 548 KVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMRHFH 606
                    +  ++P  +    + + L+LS   +  L S   +    L++L L       
Sbjct: 10  ITYQCMEL-NFYKIPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR-CEIQ 65

Query: 607 LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI-SITLGSASA 665
            I    + SL  L    L    +  L     +  + L +L  +   +  + +  +G    
Sbjct: 66  TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT 125

Query: 666 LFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFH 725
           L ++N +  L    K      NL +          LE L++    ++ +       T+  
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTN----------LEHLDLSSNKIQSIYC-----TDLR 170

Query: 726 NLHHLSIRVCPVIRDLTWIREAP-------NLQFLSLVNCQALSEIIESAGSSEVAESHN 778
            LH + +    +   L  +            L  L+L N      ++++        +  
Sbjct: 171 VLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQG---LAGL 227

Query: 779 YFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTN 814
               L++ +  +  +L++          L N+++  
Sbjct: 228 EVHRLVLGEFRNEGNLEKFDKSA--LEGLCNLTIEE 261

>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 = 74.7 bits (184), Expect = 1e-14
 Identities = 45/261 (17%), Positives = 82/261 (31%), Gaps = 50/261 (19%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
            +      +  +P         L +    L+  PH  F+ +  L  L LS N  L+    
Sbjct: 11  EIRCNSKGLTSVPTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSN-GLSFKGC 69

Query: 564 EMGA---LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLK 620
              +     +L+ L+LS   +  + S  + L+ L+ L         +    VF SL +L 
Sbjct: 70  CSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLI 129

Query: 621 VFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK 680
              +  T              I + L  L                              +
Sbjct: 130 YLDISHTHTRVA---FNG---IFNGLSSL------------------------------E 153

Query: 681 RLTIMHNLDSHSID---LRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLHHLSIRVCP 736
            L +  N    +        + +L  L++ +C LE++ P  FN  +   +L  L++    
Sbjct: 154 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS---SLQVLNMSHNN 210

Query: 737 VIRDLT--WIREAPNLQFLSL 755
               L     +   +LQ L  
Sbjct: 211 -FFSLDTFPYKCLNSLQVLDY 230

>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 = 68.9 bits (169), Expect = 1e-12
 Identities = 27/137 (19%), Positives = 55/137 (40%), Gaps = 7/137 (5%)

Query: 504 RLSLWGSSIEYLPE----TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L    S+++ + E        +L  L +  T   +  +  F  + +L+VL ++ N    
Sbjct: 105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE 164

Query: 560 QLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLL 617
               ++   L NL  L+LS   +E+L       L +L++L +     F  +    +  L 
Sbjct: 165 NFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDTFPYKCLN 223

Query: 618 SLKVFSLFSTELIELHR 634
           SL+V       ++   +
Sbjct: 224 SLQVLDYSLNHIMTSKK 240

>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 = 48.9 bits (117), Expect = 3e-06
 Identities = 25/105 (23%), Positives = 41/105 (39%), Gaps = 8/105 (7%)

Query: 504 RLSLWG-SSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L + G S  E       T   +L  L +    LE      F S+ +L+VL++S+N +  
Sbjct: 154 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN-NFF 212

Query: 560 QLPAEM-GALINLRCLNLSNTSIEELPSEIMY--LKNLKILLLDG 601
            L       L +L+ L+ S   I     + +     +L  L L  
Sbjct: 213 SLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQ 257

>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 = 75.6 bits (186), Expect = 2e-14
 Identities = 62/273 (22%), Positives = 98/273 (35%), Gaps = 38/273 (13%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L+L  ++I+ +         HL+ L +    +       F  + +L  L+L  N  LT 
Sbjct: 79  YLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN-WLTV 137

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +P+     L  LR L L N  IE +PS     + +L  L L  ++    I    F  L +
Sbjct: 138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFN 197

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISITLGSASALFKINFSWKL 675
           LK  +L    + ++  + P     L  LE L   GN   EI          F       L
Sbjct: 198 LKYLNLGMCNIKDMPNLTP-----LVGLEELEMSGNHFPEIR------PGSF-----HGL 241

Query: 676 CSCIKRLTIMHN-LDS-HSIDLRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLHHLSI 732
            S +K+L +M++ +          +  L  LN+   +L  +    F        L  L +
Sbjct: 242 SS-LKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLR---YLVELHL 297

Query: 733 RVCP-----VIRDL-TWIREAPNLQFLSLVNCQ 759
              P      I  L  W+RE           C 
Sbjct: 298 HHNPWNCDCDILWLAWWLREYIPTNSTCCGRCH 330

>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 = 67.5 bits (165), Expect = 8e-12
 Identities = 46/252 (18%), Positives = 86/252 (34%), Gaps = 46/252 (18%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA---LINLRCLNLS 577
            + + L +    +++     F  +  L+VL L  N  + Q+    GA   L +L  L L 
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEV--GAFNGLASLNTLELF 131

Query: 578 NTSIEELPSEIMY-LKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMP 636
           +  +  +PS     L  L+ L L        IP+  F+ + SL    L   + +E   + 
Sbjct: 132 DNWLTVIPSGAFEYLSKLRELWLRN-NPIESIPSYAFNRVPSLMRLDLGELKKLE--YIS 188

Query: 637 PNQTTILDELECL---GNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHN----LD 689
                 L  L+ L      I ++   L     L             + L +  N    + 
Sbjct: 189 EGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGL-------------EELEMSGNHFPEIR 234

Query: 690 SHSIDLRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLHHLSIRVCPVIRDLTWIREA- 747
             S     +  L+ L ++   +  ++   F+G     +L  L++        L+ +    
Sbjct: 235 PGS--FHGLSSLKKLWVMNSQVSLIERNAFDG---LASLVELNLAHNN----LSSLPHDL 285

Query: 748 ----PNLQFLSL 755
                 L  L L
Sbjct: 286 FTPLRYLVELHL 297

>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 = 74.1 bits (183), Expect = 3e-14
 Identities = 47/264 (17%), Positives = 94/264 (35%), Gaps = 29/264 (10%)

Query: 505 LSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           L+L G+ I  +   +    L  L +    +        +++  L+ L L+ +  ++ +  
Sbjct: 71  LNLNGNQITDISPLSNLVKLTNLYIGTNKITDIS--ALQNLTNLRELYLNEDN-ISDISP 127

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +  L  +  LNL         S +  +  L  L +   +   + P    ++L  L   S
Sbjct: 128 -LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP---IANLTDLYSLS 183

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT 683
           L   ++ ++   P    T L       NQI +I+              +    + +  L 
Sbjct: 184 LNYNQIEDIS--PLASLTSLHYFTAYVNQITDIT------------PVAN--MTRLNSLK 227

Query: 684 IMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW 743
           I +N  +    L N+  L  L I    +  ++       +   L  L++     I D++ 
Sbjct: 228 IGNNKITDLSPLANLSQLTWLEIGTNQISDINA----VKDLTKLKMLNVGSNQ-ISDISV 282

Query: 744 IREAPNLQFLSLVNCQALSEIIES 767
           +     L  L L N Q  +E +E 
Sbjct: 283 LNNLSQLNSLFLNNNQLGNEDMEV 306

>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 = 61.8 bits (151), Expect = 3e-10
 Identities = 42/263 (15%), Positives = 94/263 (35%), Gaps = 30/263 (11%)

Query: 505 LSLWGSSIEYL-PETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           L+   + I  + P+         +++   +        E + ++  L ++    +  +  
Sbjct: 5   LATLPAPINQIFPDADLAEGIRAVLQKASVTDVVT--QEELESITKLVVAGE-KVASIQG 61

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +  L NL  LNL+   I ++   +  L  L  L +   +    I A    +L +L+   
Sbjct: 62  -IEYLTNLEYLNLNGNQITDIS-PLSNLVKLTNLYIGTNK-ITDISA--LQNLTNLRELY 116

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT 683
           L    + ++   P    T +  L    N        L + + L               LT
Sbjct: 117 LNEDNISDIS--PLANLTKMYSLNLGANHNLSDLSPLSNMTGL-------------NYLT 161

Query: 684 IMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW 743
           +  +       + N+  L +L++    +E + P      +  +LH+ +  V   I D+T 
Sbjct: 162 VTESKVKDVTPIANLTDLYSLSLNYNQIEDISP----LASLTSLHYFTAYVNQ-ITDITP 216

Query: 744 IREAPNLQFLSLVNCQALSEIIE 766
           +     L  L + N + ++++  
Sbjct: 217 VANMTRLNSLKIGNNK-ITDLSP 238

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

 Score = 46.0 bits (110), Expect = 4e-05
 Identities = 18/99 (18%), Positives = 32/99 (32%), Gaps = 4/99 (4%)

Query: 504 RLSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
            L +  + I  +        L+ L V    +         ++  L  L L+ N    +  
Sbjct: 247 WLEIGTNQISDINAVKDLTKLKMLNVGSNQISDISV--LNNLSQLNSLFLNNNQLGNEDM 304

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
             +G L NL  L LS   I ++   +  L  +       
Sbjct: 305 EVIGGLTNLTTLFLSQNHITDIR-PLASLSKMDSADFAN 342

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

 Score = 73.1 bits (180), Expect = 4e-14
 Identities = 45/310 (14%), Positives = 101/310 (32%), Gaps = 45/310 (14%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNT 579
              +   V  + L+       +S   +K LDLS N  L+Q+ A        L  LNLS+ 
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLELLNLSSN 68

Query: 580 SIEELPSEIMYLKNLKILLLDG-----------MRHFHL-------IPARVFSSLLSLKV 621
            + E   ++  L  L+ L L+            +   H        +         ++  
Sbjct: 69  VLYETL-DLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNI-- 125

Query: 622 FSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI--TLGSASALFKINFSW------ 673
             L + ++  L  +     + +  L+   N+I  ++      S+  L  +N  +      
Sbjct: 126 -YLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV 184

Query: 674 ---KLCSCIKRLTIMHN-LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHH 729
               + + +K L +  N L     + ++   +  +++    L  ++          NL H
Sbjct: 185 KGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQ---NLEH 241

Query: 730 LSIRVCPVIRD--LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVID 787
             +R           +  +   +Q ++    + L+   E   +      +  +      +
Sbjct: 242 FDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAY----CCE 297

Query: 788 LDSLPSLKRI 797
               P   R+
Sbjct: 298 DLPAPFADRL 307

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

 Score = 65.8 bits (161), Expect = 1e-11
 Identities = 29/211 (13%), Positives = 60/211 (28%), Gaps = 31/211 (14%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-- 562
           L    ++I  +  +     + + +    + +           ++ LDL  N ++  +   
Sbjct: 104 LHAANNNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFA 162

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF 622
               +   L  LNL    I ++  ++     LK L L        +    F S   +   
Sbjct: 163 ELAASSDTLEHLNLQYNFIYDVKGQV-VFAKLKTLDLSS-NKLAFMGP-EFQSAAGVTWI 219

Query: 623 SLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW-KLCSCIKR 681
           SL                          N++  I   L  +  L   +           R
Sbjct: 220 SLR------------------------NNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLR 255

Query: 682 LTIMHNLDSHSIDLRNMMHLETLNIVECSLE 712
                N    ++  + +  L   N  EC++ 
Sbjct: 256 DFFSKNQRVQTVAKQTVKKLTGQNEEECTVP 286

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

 Score = 63.5 bits (155), Expect = 7e-11
 Identities = 28/160 (17%), Positives = 56/160 (35%), Gaps = 17/160 (10%)

Query: 504 RLSLWGSSIEYLPE----TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L L  + I+ +           L+ L +++  +     +       LK LDLS N  L 
Sbjct: 148 YLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTLDLSSN-KLA 204

Query: 560 QLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSL 619
            +  E  +   +  ++L N  +  +   + + +NL+   L G   FH            L
Sbjct: 205 FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNG-FHCGT---------L 254

Query: 620 KVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT 659
           + F   +  +  + +    + T  +E EC    +      
Sbjct: 255 RDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAY 294

>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 = 73.9 bits (182), Expect = 9e-14
 Identities = 49/274 (17%), Positives = 82/274 (29%), Gaps = 34/274 (12%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN--LDLTQL 561
            L L        P      L+ L   FT  +         + +L+ LDLS N        
Sbjct: 308 HLELVNCKFGQFPTLKLKSLKRL--TFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCC 365

Query: 562 PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV 621
                   +L+ L+LS   +  + S  + L+ L+ L         +    VF SL +L  
Sbjct: 366 SQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIY 425

Query: 622 FSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISI--TLGSASALFKINFS---- 672
             +  T               L  LE L   GN   E  +         L  ++ S    
Sbjct: 426 LDISHT---HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 482

Query: 673 -------WKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDP-TFNGWT 722
                  +   S ++ L + HN          + +  L+ L+     +            
Sbjct: 483 EQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQH-- 540

Query: 723 NFHNLHHLSIR------VCPVIRDLTWIREAPNL 750
              +L  L++        C     L WI++   L
Sbjct: 541 FPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQL 574

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 72.4 bits (178), Expect = 3e-13
 Identities = 51/354 (14%), Positives = 98/354 (27%), Gaps = 42/354 (11%)

Query: 504 RLSLWGSSIEYLPETP----CPHLQTLLVRFTVLEIFPHRFFESMGALKV----LDLSYN 555
            L++  + I+            +L+ L +    ++         +  + +    LDLS N
Sbjct: 128 ELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN 187

Query: 556 LDLTQLPAEMGALINLRCLNLSN--TSIEELPSEIMYLKNLKILLLD-----GMRHFHLI 608
             +  +       I L  L L N   S+  + + I  L  L++  L         +    
Sbjct: 188 -PMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKF 246

Query: 609 PARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEISITLGSASA 665
                  L +L +       L        +    L  +         I  +         
Sbjct: 247 DKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVK-DFSYNFG 305

Query: 666 LFKINFSW--------KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPT 717
              +                 +KRLT   N   ++    ++  LE L++    L      
Sbjct: 306 WQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCC 365

Query: 718 FNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE-- 775
                   +L +L +    VI   +       L+ L   +   L ++ E +    +    
Sbjct: 366 SQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLI 424

Query: 776 ----SHNYFAYLMVIDLDSLPSLKRI----CHGTMPFPSLQNVSVTNCPNLREL 821
               SH +         + L SL+ +          F        T   NL  L
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP---DIFTELRNLTFL 475

>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 = 71.2 bits (175), Expect = 7e-13
 Identities = 62/372 (16%), Positives = 113/372 (30%), Gaps = 55/372 (14%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L    I+ + +       HL TL++    ++      F  + +L+ L        + 
Sbjct: 56  VLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASL 115

Query: 561 LPAEMGALINLRCLNLSNTSIE--ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
               +G L  L+ LN+++  I+  +LP     L NL+ L L   +    I       L  
Sbjct: 116 ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQ 174

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS------ 672
           + + +L                     L+   N +  I         L K+         
Sbjct: 175 MPLLNL--------------------SLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSL 214

Query: 673 ---WKLCSCIKRLTIMHNLDS--------HSIDLRNMMHLETLNIVECSLERVDPTFNGW 721
                    +  L +   +             D   +  L  L I E  L  +D   +  
Sbjct: 215 NVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDI 274

Query: 722 T----NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESH 777
                   N+   S+     I  +         Q L LVNC+   +       S    + 
Sbjct: 275 IDLFNCLTNVSSFSLVSVT-IERVKDFSYNFGWQHLELVNCK-FGQFPTLKLKSLKRLTF 332

Query: 778 NYFAYLMVIDLDSLPSLKRIC--HGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSI 835
                        LPSL+ +      + F    + S     +L+ L    D + N ++++
Sbjct: 333 TSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL----DLSFNGVITM 388

Query: 836 RGSAEWWEQLQW 847
             +    EQL+ 
Sbjct: 389 SSNFLGLEQLEH 400

>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 = 71.4 bits (175), Expect = 2e-13
 Identities = 40/242 (16%), Positives = 84/242 (34%), Gaps = 13/242 (5%)

Query: 511 SIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-- 565
           ++ Y+        P+LQ LL+  T ++  P           +LD+  N+++  +      
Sbjct: 91  NLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFV 150

Query: 566 GALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLF 625
           G       L L+   I+E+ +       L  L L    +   +P  VF       +  + 
Sbjct: 151 GLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS 210

Query: 626 STELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS--WKLC---SCIK 680
            T +  L   P      L +L        +   TL    AL + + +     C   +  +
Sbjct: 211 RTRIHSL---PSYGLENLKKLRARSTYNLKKLPTLEKLVALMEASLTYPSHCCAFANWRR 267

Query: 681 RLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRD 740
           +++ +H + + SI  + + ++        SL   + +                +C  + D
Sbjct: 268 QISELHPICNKSILRQEVDYMTQARGQRSSLAEDNESSYSRGFDMTYTEFDYDLCNEVVD 327

Query: 741 LT 742
           +T
Sbjct: 328 VT 329

>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 = 59.1 bits (143), Expect = 2e-09
 Identities = 41/284 (14%), Positives = 79/284 (27%), Gaps = 52/284 (18%)

Query: 490 DCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKV 549
            C+N+               S +  +P     +   L    T L +     F   G L+ 
Sbjct: 8   HCSNRV---------FLCQESKVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEK 58

Query: 550 LDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIP 609
           +++S N  L  + A      NL                      L  + ++   +   I 
Sbjct: 59  IEISQNDVLEVIEA--DVFSNL--------------------PKLHEIRIEKANNLLYIN 96

Query: 610 ARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGN-QIYEISITL--GSASAL 666
              F +L +L+   + +T +  L  +    +     L+   N  I+ I      G +   
Sbjct: 97  PEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFES 156

Query: 667 FKINFSWKLCSCI----------KRLTIMHNLDSHSID---LRNMMHLETLNIVECSLER 713
             +  +      I            L +  N +   +             L+I    +  
Sbjct: 157 VILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHS 216

Query: 714 VDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN 757
           +           NL  L  R    ++ L  + +   L   SL  
Sbjct: 217 LPS-----YGLENLKKLRARSTYNLKKLPTLEKLVALMEASLTY 255

>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 = 72.8 bits (179), Expect = 3e-13
 Identities = 48/420 (11%), Positives = 118/420 (28%), Gaps = 84/420 (20%)

Query: 474 LWLASNESKILVQRS--SDCTNKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFT 531
           L L S+  K+  +       +   +D  ++  R+    + ++Y P      L    +   
Sbjct: 110 LALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSD 169

Query: 532 VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI---------- 581
             +    +          +    N ++T +   +  L  LR   + N+            
Sbjct: 170 PQQKSIKKSSRITLKDTQIGQLSN-NITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWE 228

Query: 582 ----------EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE 631
                     +    +   LK+L  + +    +   +P     +L  +++ ++     I 
Sbjct: 229 NENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPT-FLKALPEMQLINVACNRGIS 287

Query: 632 LHRMPPNQTTILDELECL---------GNQIYEISI--TLGSASALFKINFSW-KL---- 675
             +   +    L +              N +    +  +L     L  +   + +L    
Sbjct: 288 GEQ-LKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKL 346

Query: 676 -----CSCIKRLTIMHNL-----DSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFH 725
                   +  L + +N       +          +E L+     L+ + P      +  
Sbjct: 347 PAFGSEIKLASLNLAYNQITEIPANFCGFTEQ---VENLSFAHNKLKYI-PNIFDAKSVS 402

Query: 726 NLHHL--------SIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESH 777
            +  +        S+             +  N+  ++L N Q +S+  +   S+      
Sbjct: 403 VMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQ-ISKFPKELFST------ 455

Query: 778 NYFAYLMVIDLDS--LPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSI 835
              + L  I+L    L  + +              +  N   L  +    D   N L  +
Sbjct: 456 --GSPLSSINLMGNMLTEIPKNSLKDEN------ENFKNTYLLTSI----DLRFNKLTKL 503

>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 = 69.7 bits (171), Expect = 2e-12
 Identities = 40/293 (13%), Positives = 88/293 (30%), Gaps = 50/293 (17%)

Query: 543 SMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE-----ELPSEIMYLKNLKIL 597
           S G +  L L       ++P  +G L  L  L L +   +       P  I    + +  
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQK 138

Query: 598 LLDGMRHFHLIPAR----VFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
               M +            FS L+   + S    + I+        T    ++  L N I
Sbjct: 139 QKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSS---RITLKDTQIGQLSNNI 195

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSL 711
             +S  +   + L             ++  + ++              + E         
Sbjct: 196 TFVSKAVMRLTKL-------------RQFYMGNSPFVAENICEAWENENSEYAQQ----Y 238

Query: 712 ERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGS 770
           +  D  ++   N  +L  + +  CP +  L T+++  P +Q +++   +      +    
Sbjct: 239 KTEDLKWD---NLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNR-GISGEQLKDD 294

Query: 771 SEVAESHNYFAYLMVIDLD--SLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
            +          + +I +   +L +         P  +    S+     L  L
Sbjct: 295 WQALADAPVGEKIQIIYIGYNNLKTF--------PVET----SLQKMKKLGML 335

>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 = 63.5 bits (155), Expect = 2e-10
 Identities = 43/372 (11%), Positives = 117/372 (31%), Gaps = 72/372 (19%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
             +  S             +         +    ++ +++  L  +++    +LT+LP  
Sbjct: 211 FYMGNSPFVAENICEAWENENSEY-AQQYKTEDLKW-DNLKDLTDVEVYNCPNLTKLPTF 268

Query: 565 MGALINLRCLNLSN---TSIEELP------SEIMYLKNLKILLLDGMRHFHLIPARVFSS 615
           + AL  ++ +N++     S E+L       ++    + ++I+ +                
Sbjct: 269 LKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQK 328

Query: 616 LLSLKVFSLFS---TELIE-----------------LHRMPPNQTTILDELECL---GNQ 652
           +  L +           +                  +  +P N     +++E L    N+
Sbjct: 329 MKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK 388

Query: 653 IYEI--SITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLRNMMHLETLNIVE 708
           +  I       S S +  I+FS+        +  +   +   +       +++ ++N+  
Sbjct: 389 LKYIPNIFDAKSVSVMSAIDFSY------NEIGSVDGKNFDPLDPTPFKGINVSSINLSN 442

Query: 709 CSLERVDP-TFNGWTNFHNLH----HLS-IRVCPVIRDLTWIREAPNLQFLSLVNCQALS 762
             + +     F+  +   +++     L+ I    +  +    +    L  + L   + L+
Sbjct: 443 NQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNK-LT 501

Query: 763 EIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP 822
           ++ +   ++          YL+ IDL    S  +        P+       N   L+   
Sbjct: 502 KLSDDFRATT-------LPYLVGIDLSYN-SFSKF-------PT----QPLNSSTLKGFG 542

Query: 823 --FNFDSAKNSL 832
                D+  N  
Sbjct: 543 IRNQRDAQGNRT 554

>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 = 56.2 bits (136), Expect = 4e-08
 Identities = 16/112 (14%), Positives = 38/112 (33%), Gaps = 10/112 (8%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDL------TQLPAEMGALINLRC 573
            P+L  + + +     FP     +   LK   +    D        + P  +    +L  
Sbjct: 512 LPYLVGIDLSYNSFSKFP-TQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQ 570

Query: 574 LNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLF 625
           L + +  I ++  +I    N+ +L +    +  +         +   ++ LF
Sbjct: 571 LQIGSNDIRKVNEKI--TPNISVLDIKDNPNISIDL-SYVCPYIEAGMYMLF 619

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

 Score = 71.5 bits (176), Expect = 4e-13
 Identities = 63/324 (19%), Positives = 114/324 (35%), Gaps = 43/324 (13%)

Query: 504 RLSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
            L      I+ +       +L  +      L        +++  L  + ++ N  +  + 
Sbjct: 50  TLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADIT 106

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF 622
             +  L NL  L L N  I ++   +  L NL  L L        I A   S L SL+  
Sbjct: 107 P-LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELSSNT-ISDISA--LSGLTSLQQL 161

Query: 623 SLFS--TELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK 680
           S  +  T+L  L  +     T L+ L+   N++ +IS  L   + L             +
Sbjct: 162 SFGNQVTDLKPLANL-----TTLERLDISSNKVSDIS-VLAKLTNL-------------E 202

Query: 681 RLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRD 740
            L   +N  S    L  + +L+ L++    L+ +        +  NL  L +     I +
Sbjct: 203 SLIATNNQISDITPLGILTNLDELSLNGNQLKDIGT----LASLTNLTDLDLANNQ-ISN 257

Query: 741 LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE---SHNYFAYLMVIDLDSLPSLKRI 797
           L  +     L  L L   Q +S I   AG + +     + N    +    + +L +L  +
Sbjct: 258 LAPLSGLTKLTELKLGANQ-ISNISPLAGLTALTNLELNENQLEDI--SPISNLKNLTYL 314

Query: 798 CHGTMPFPSLQNVSVTNCPNLREL 821
                    +  VS  +   L+ L
Sbjct: 315 TLYFNNISDISPVS--SLTKLQRL 336

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

 Score = 71.1 bits (175), Expect = 5e-13
 Identities = 50/267 (18%), Positives = 94/267 (35%), Gaps = 30/267 (11%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           +LS      +  P      L+ L +    +          +  L+ L  + N  ++ +  
Sbjct: 160 QLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS--VLAKLTNLESLIATNN-QISDITP 216

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +G L NL  L+L+   ++++ + +  L NL  L L   +  +L P    S L  L    
Sbjct: 217 -LGILTNLDELSLNGNQLKDIGT-LASLTNLTDLDLANNQISNLAP---LSGLTKLTELK 271

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT 683
           L + ++  +   P    T L  LE   NQ+ +IS  + +   L  +              
Sbjct: 272 LGANQISNIS--PLAGLTALTNLELNENQLEDIS-PISNLKNLTYLTLY----------- 317

Query: 684 IMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW 743
              N  S    + ++  L+ L      +  V        N  N++ LS      I DLT 
Sbjct: 318 --FNNISDISPVSSLTKLQRLFFYNNKVSDVSS----LANLTNINWLSAGHNQ-ISDLTP 370

Query: 744 IREAPNLQFLSLVNCQALSEIIESAGS 770
           +     +  L L +    +    +  +
Sbjct: 371 LANLTRITQLGLNDQA-WTNAPVNYKA 396

>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 = 66.9 bits (164), Expect = 1e-11
 Identities = 58/299 (19%), Positives = 106/299 (35%), Gaps = 33/299 (11%)

Query: 534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
           +IF      ++       L    ++T   ++   L  +  L      I+ +   + YL N
Sbjct: 16  QIFT---DTALAEKMKTVLGKT-NVTDTVSQ-TDLDQVTTLQADRLGIKSI-DGVEYLNN 69

Query: 594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
           L  +     +   + P     +L  L    + + ++ ++   P    T L  L    NQI
Sbjct: 70  LTQINFSNNQLTDITP---LKNLTKLVDILMNNNQIADIT--PLANLTNLTGLTLFNNQI 124

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLD--------SHSIDLRNMMHLETLN 705
            +I   L + + L ++  S    S I  L+ + +L         +    L N+  LE L+
Sbjct: 125 TDID-PLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLD 183

Query: 706 IVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEII 765
           I    +  +           NL  L       I D+T +    NL  LSL   Q L +I 
Sbjct: 184 ISSNKVSDISV----LAKLTNLESLIATNNQ-ISDITPLGILTNLDELSLNGNQ-LKDIG 237

Query: 766 ESAGSSEVAE---SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
             A  + + +   ++N  + L    L  L  L  +  G     ++  ++      L  L
Sbjct: 238 TLASLTNLTDLDLANNQISNL--APLSGLTKLTELKLGANQISNISPLA--GLTALTNL 292

>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 = 47.7 bits (114), Expect = 1e-05
 Identities = 20/121 (16%), Positives = 40/121 (33%), Gaps = 7/121 (5%)

Query: 505 LSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           L+L+ ++I  +   +    LQ L      +         ++  +  L   +N  ++ L  
Sbjct: 314 LTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSS--LANLTNINWLSAGHN-QISDLT- 369

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +  L  +  L L++ +    P    Y  N+ I          LI     S   S     
Sbjct: 370 PLANLTRITQLGLNDQAWTNAPVN--YKANVSIPNTVKNVTGALIAPATISDGGSYTEPD 427

Query: 624 L 624
           +
Sbjct: 428 I 428

>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 = 71.4 bits (175), Expect = 7e-13
 Identities = 59/354 (16%), Positives = 116/354 (32%), Gaps = 53/354 (14%)

Query: 505 LSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
           L L    +  L          L+ L + +  +       F  +  L+VL+LSYNL L +L
Sbjct: 271 LDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNL-LGEL 329

Query: 562 PAEM-GALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDG--MRHFHLIPARVFSSLL 617
            +     L  +  ++L    I  +  +    L+ L+ L L    +   H IP        
Sbjct: 330 YSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIP-------- 381

Query: 618 SLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT--LGSASALFKINFSW-- 673
           S+    L   +L+ L ++          +    N++  + I   L     L  +  +   
Sbjct: 382 SIPDIFLSGNKLVTLPKINLTANL----IHLSENRLENLDILYFLLRVPHLQILILNQNR 437

Query: 674 -------KLCSCIKRLTIMHNLDSHSID-----------LRNMMHLETLNIVECSLERVD 715
                  +  S    L  +  L  + +               + HL+ L +    L  + 
Sbjct: 438 FSSCSGDQTPSENPSLEQL-FLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLP 496

Query: 716 PTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSS--EV 773
           P    +++   L  LS+     +  L+      NL+ L +   Q L         S   +
Sbjct: 497 P--GVFSHLTALRGLSLNSNR-LTVLSHNDLPANLEILDISRNQ-LLAPNPDVFVSLSVL 552

Query: 774 AESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP-FNFD 826
             +HN F      +L +  +     + T+  P   ++      +   +  F+  
Sbjct: 553 DITHNKFIC--ECELSTFINWLNHTNVTIAGPP-ADIYCVYPDSFSGVSLFSLS 603

>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 = 70.6 bits (173), Expect = 1e-12
 Identities = 58/339 (17%), Positives = 113/339 (33%), Gaps = 26/339 (7%)

Query: 509 GSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GA 567
             ++  +P+      + LL+ F  +       F  +  L++L+L        +  E    
Sbjct: 13  FCNLTQVPQVL-NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRN 71

Query: 568 LINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMR-HFHLIPARVFSSLLSLKVFSLF 625
           L NLR L+L ++ I  L  +    L +L  L L        ++    F +L +L    L 
Sbjct: 72  LPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLS 131

Query: 626 STELIELHRMPP-NQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTI 684
             ++  L+  P   +   L  ++   NQI+ +         L     S+   +     + 
Sbjct: 132 KNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCE--HELEPLQGKTLSFFSLAANSLYSR 189

Query: 685 MHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW- 743
           +       ++    M LE L++       VD T N           S+ +   I    + 
Sbjct: 190 VSVDWGKCMNPFRNMVLEILDVSGNGW-TVDITGNFSNAISKSQAFSLILAHHIMGAGFG 248

Query: 744 ---IREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHG 800
              I++     F  L     +  +           SH +   L     ++L  LK +   
Sbjct: 249 FHNIKDPDQNTFAGLARSS-VRHLD---------LSHGFVFSLNSRVFETLKDLKVLNLA 298

Query: 801 TMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSA 839
                 + + +     NL+ L  ++    N L  +  S 
Sbjct: 299 YNKINKIADEAFYGLDNLQVLNLSY----NLLGELYSSN 333

>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 = 54.4 bits (131), Expect = 1e-07
 Identities = 54/372 (14%), Positives = 113/372 (30%), Gaps = 62/372 (16%)

Query: 505 LSLWGSSIEYLPET-----PCPHLQTLLVRFTVLEIFPHRFFESMG------ALKVLDLS 553
           +    + I  + E          L    +    L       +           L++LD+S
Sbjct: 153 IDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVS 212

Query: 554 YNLDLTQLPA------------EMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLD 600
            N     +               +    ++        +I++        L    +  LD
Sbjct: 213 GNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLD 272

Query: 601 GMRHFHL--IPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYE 655
            + H  +  + +RVF +L  LKV +L      +++++       LD L+ L    N + E
Sbjct: 273 -LSHGFVFSLNSRVFETLKDLKVLNLAYN---KINKIADEAFYGLDNLQVLNLSYNLLGE 328

Query: 656 ISITLGSASALFKINFSWKLCSCIKRLTIMHN--LDSHSIDLRNMMHLETLNIVECSLER 713
           +          +  NF       +  + +  N          + +  L+TL++ + +L  
Sbjct: 329 L----------YSSNFYG--LPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALT- 375

Query: 714 VDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEV 773
              T +   +  ++  LS      +  +       +L    L N   L  ++       +
Sbjct: 376 ---TIHFIPSIPDI-FLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQIL 431

Query: 774 AESHNYFAYLMVIDLDS-LPSLKRIC-----HGTMPFPSLQNVSVTNCPNLRELPFNFDS 827
             + N F+        S  PSL+++              L         +L+ L      
Sbjct: 432 ILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVL----YL 487

Query: 828 AKNSLVSIRGSA 839
             N L S+    
Sbjct: 488 NHNYLNSLPPGV 499

>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 = 47.9 bits (114), Expect = 1e-05
 Identities = 41/218 (18%), Positives = 69/218 (31%), Gaps = 28/218 (12%)

Query: 489 SDCTNKSADSWREDFR-LSLWGSSIEYLPET--------PCPHLQTLLVRFTVLEIFPHR 539
           S C+     S       L L  + ++   ET           HLQ L +    L   P  
Sbjct: 439 SSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPG 498

Query: 540 FFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL 599
            F  + AL+ L L+ N  LT L        NL  L++S   +     ++    +L +L +
Sbjct: 499 VFSHLTALRGLSLNSN-RLTVLSHND-LPANLEILDISRNQLLAPNPDV--FVSLSVLDI 554

Query: 600 DGMRHFHLIPARVFSSLLSLKV---------------FSLFSTELIELHRMPPNQTTILD 644
              +         F + L+                   S     L  L     ++  +L 
Sbjct: 555 THNKFICECELSTFINWLNHTNVTIAGPPADIYCVYPDSFSGVSLFSLSTEGCDEEEVLK 614

Query: 645 ELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRL 682
            L+     +  +++TL   + L    F      C K  
Sbjct: 615 SLKFSLFIVCTVTLTLFLMTILTVTKFRGFCFICYKTA 652

>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 = 68.5 bits (168), Expect = 2e-12
 Identities = 51/284 (17%), Positives = 95/284 (33%), Gaps = 48/284 (16%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
           +      +E +P+   P    L ++   +       F+++  L  L L  N  ++++   
Sbjct: 36  VQCSDLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK-ISKISPG 94

Query: 565 MGA-LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG----------------MRHFHL 607
             A L+ L  L LS   ++ELP ++   K L+ L +                  M    L
Sbjct: 95  AFAPLVKLERLYLSKNQLKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVEL 152

Query: 608 ---------IPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEIS- 657
                    I    F  +  L    +  T    +  +P      L EL   GN+I ++  
Sbjct: 153 GTNPLKSSGIENGAFQGMKKLSYIRIADT---NITTIPQGLPPSLTELHLDGNKITKVDA 209

Query: 658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPT 717
            +L   + L K+  S+   S +   +           L N  HL  L++    L +V   
Sbjct: 210 ASLKGLNNLAKLGLSFNSISAVDNGS-----------LANTPHLRELHLNNNKLVKVPGG 258

Query: 718 FNGWTNFH--NLHHLSIRVCP--VIRDLTWIREAPNLQFLSLVN 757
                      LH+ +I            +  +  +   +SL +
Sbjct: 259 LADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>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 = 57.7 bits (140), Expect = 6e-09
 Identities = 25/140 (17%), Positives = 56/140 (40%), Gaps = 8/140 (5%)

Query: 505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE 564
           + +  ++I  +P+   P L  L +    +        + +  L  L LS+N  ++ +   
Sbjct: 176 IRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDNG 234

Query: 565 M-GALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG--MRHFH---LIPARVFSSLLS 618
                 +LR L+L+N  + ++P  +   K ++++ L    +         P    +   S
Sbjct: 235 SLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKAS 294

Query: 619 LKVFSLFSTELIELHRMPPN 638
               SLFS   ++   + P+
Sbjct: 295 YSGVSLFSNP-VQYWEIQPS 313

>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 = 50.0 bits (120), Expect = 2e-06
 Identities = 63/296 (21%), Positives = 104/296 (35%), Gaps = 80/296 (27%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDGMRHF 605
           L+V+  S +L L ++P ++    +   L+L N  I E+       LKNL  L+L      
Sbjct: 33  LRVVQCS-DLGLEKVPKDLPP--DTALLDLQNNKITEIKDGDFKNLKNLHTLILIN-NKI 88

Query: 606 HLIPARVFSSLLSLKVFSLFSTELIELHR-MPPNQTTILDELECLGNQIYEISITLGSAS 664
             I    F+ L+ L+   L   +L EL   MP      L EL    N+I ++        
Sbjct: 89  SKISPGAFAPLVKLERLYLSKNQLKELPEKMPKT----LQELRVHENEITKVR------K 138

Query: 665 ALFKINFSWKLCSCIKRLTIMHN-LDSHSID---LRNMMHLETLNIVECSLERVDP-TFN 719
           ++F       L   +  + +  N L S  I+    + M  L  + I + ++  +      
Sbjct: 139 SVFN-----GLNQ-MIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPP 192

Query: 720 GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNY 779
             T  H L    I     +   + ++   NL  L L                    S N 
Sbjct: 193 SLTELH-LDGNKITK---VDAAS-LKGLNNLAKLGL--------------------SFN- 226

Query: 780 FAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSI 835
                        S+  + +G++           N P+LREL  N     N LV +
Sbjct: 227 -------------SISAVDNGSL----------ANTPHLRELHLNN----NKLVKV 255

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 67.7 bits (166), Expect = 2e-12
 Identities = 37/159 (23%), Positives = 58/159 (36%), Gaps = 6/159 (3%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           R+ L G+ I ++P      C +L  L +   VL       F  +  L+ LDLS N  L  
Sbjct: 36  RIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRS 95

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +       L  L  L+L    ++EL   +   L  L+ L L        +P   F  L +
Sbjct: 96  VDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGN 154

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEIS 657
           L    L    +  +          LD L    N++  + 
Sbjct: 155 LTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVH 193

>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 = 58.5 bits (142), Expect = 2e-09
 Identities = 44/216 (20%), Positives = 70/216 (32%), Gaps = 24/216 (11%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLS-N 578
              Q + +    +   P   F +   L +L L  N  L ++ A     L  L  L+LS N
Sbjct: 32  AASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDN 90

Query: 579 TSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPP 637
             +  +       L  L  L LD       +   +F  L +L+   L    L  L     
Sbjct: 91  AQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQALPDDTF 149

Query: 638 NQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHN----LDSHSI 693
                L  L   GN+I  +          F+      L S + RL +  N    +  H+ 
Sbjct: 150 RDLGNLTHLFLHGNRISSVP------ERAFR-----GLHS-LDRLLLHQNRVAHVHPHA- 196

Query: 694 DLRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLH 728
             R++  L TL +   +L  +             L 
Sbjct: 197 -FRDLGRLMTLYLFANNLSALPTEALAPLRALQYLR 231

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 67.3 bits (164), Expect = 1e-11
 Identities = 32/168 (19%), Positives = 57/168 (33%), Gaps = 23/168 (13%)

Query: 499 WREDFRLSLWGSS----IEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSY 554
           W +  + +L G +    +  L E        L +    L   P         + VL+++ 
Sbjct: 33  WDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNLPPQ---ITVLEITQ 89

Query: 555 NLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFS 614
           N  L  LP       +L  L+  +  +  LP     LK+L +          ++P     
Sbjct: 90  N-ALISLPELPA---SLEYLDACDNRLSTLPELPASLKHLDV----DNNQLTMLP----E 137

Query: 615 SLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGS 662
               L+  +  + +L  L    P   T L+ L    NQ+  +     S
Sbjct: 138 LPALLEYINADNNQLTML----PELPTSLEVLSVRNNQLTFLPELPES 181

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 59.2 bits (143), Expect = 3e-09
 Identities = 31/155 (20%), Positives = 52/155 (33%), Gaps = 21/155 (13%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
            L    + +  LPE P   L+ L V    L + P    E    L+ ++   N  LT LP 
Sbjct: 104 YLDACDNRLSTLPELP-ASLKHLDVDNNQLTMLP----ELPALLEYINADNNQ-LTMLPE 157

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVF---SSLLSLK 620
                 +L  L++ N  +  LP      ++L+ L +        +PA       S  +  
Sbjct: 158 LPT---SLEVLSVRNNQLTFLPEL---PESLEALDVSTNL-LESLPAVPVRNHHSEETEI 210

Query: 621 VFSLFSTELIELHRMPPN--QTTILDELECLGNQI 653
            F      +  +   P N         +    N +
Sbjct: 211 FFRCRENRITHI---PENILSLDPTCTIILEDNPL 242

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 53.4 bits (128), Expect = 2e-07
 Identities = 19/106 (17%), Positives = 37/106 (34%), Gaps = 5/106 (4%)

Query: 504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMG---ALKVLDLSYNLDLTQ 560
            LS+  + + +LPE P   L+ L V   +LE  P     +              N  +T 
Sbjct: 164 VLSVRNNQLTFLPELP-ESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCREN-RITH 221

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFH 606
           +P  + +L     + L +  +     E +  +  +        +F 
Sbjct: 222 IPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFS 267

>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 = 64.8 bits (158), Expect = 6e-11
 Identities = 41/259 (15%), Positives = 80/259 (30%), Gaps = 15/259 (5%)

Query: 508 WGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA 567
               +  +PE P  H+  + +    +       F  +  L+ L +        +      
Sbjct: 18  INRGLHQVPELP-AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFR 76

Query: 568 -LINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMR-HFHLIPARVFSSLLSLKVFSL 624
            L +L  L L      +L +     L NL++L L        ++    F  L SL++  L
Sbjct: 77  GLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVL 136

Query: 625 FSTEL--IELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW-KLCS-CIK 680
               +  I+      N       L+   N++   SI           +F+  +L S  ++
Sbjct: 137 RDNNIKKIQPASFFLNMRR-FHVLDLTFNKV--KSICEEDLLNFQGKHFTLLRLSSITLQ 193

Query: 681 RLTIMHNLDSHSIDLRNMMHLETL----NIVECSLERVDPTFNGWTNFHNLHHLSIRVCP 736
            +           +      + TL    N  + S+ +        T   +L   +     
Sbjct: 194 DMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMG 253

Query: 737 VIRDLTWIREAPNLQFLSL 755
                T  ++  N  F  L
Sbjct: 254 SSFGHTNFKDPDNFTFKGL 272

>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 = 56.3 bits (136), Expect = 2e-08
 Identities = 31/171 (18%), Positives = 61/171 (35%), Gaps = 19/171 (11%)

Query: 474 LWLASNESKILVQRSSDCTNKSAD------SWREDFRLSLWGSSIEYLPETPC-----PH 522
           L L+ N  K  + +                S   +   S   ++ +              
Sbjct: 217 LDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASG 276

Query: 523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA---LINLRCLNLSNT 579
           ++T  +  + +       F     L+ L L+ N ++ ++     A   L +L  LNLS  
Sbjct: 277 VKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQN-EINKIDD--NAFWGLTHLLKLNLSQN 333

Query: 580 SIEELPSEIMY-LKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
            +  + S +   L  L++L L    H   +  + F  L +LK  +L + +L
Sbjct: 334 FLGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTNQL 383

>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 = 54.0 bits (130), Expect = 1e-07
 Identities = 40/196 (20%), Positives = 71/196 (36%), Gaps = 16/196 (8%)

Query: 493 NKSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFE-SMGALKVLD 551
           N   +S  + F  ++ G+ I+ L  +   ++ +        +     F       +K  D
Sbjct: 222 NGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCD 281

Query: 552 LSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMRHFHLIP 609
           LS +  +  L   +     +L  L L+   I ++     + L +L  L L        I 
Sbjct: 282 LSKS-KIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ-NFLGSID 339

Query: 610 ARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEI-SITLGSASA 665
           +R+F +L  L+V  L    +  L          L  L+ L    NQ+  +        ++
Sbjct: 340 SRMFENLDKLEVLDLSYNHIRAL---GDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTS 396

Query: 666 LFKINFS---WKLCSC 678
           L KI      W  CSC
Sbjct: 397 LQKIWLHTNPWD-CSC 411

>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 = 63.2 bits (154), Expect = 8e-11
 Identities = 45/220 (20%), Positives = 82/220 (37%), Gaps = 27/220 (12%)

Query: 540 FFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL 599
               +  +  L       +T +   +  L NL  L L +  I +L + +  L  +  L L
Sbjct: 36  TQADLDGITTLSAFGT-GVTTIEG-VQYLNNLIGLELKDNQITDL-APLKNLTKITELEL 92

Query: 600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT 659
            G    ++      + L S+K   L ST++ ++  +     + L  L    NQI  IS  
Sbjct: 93  SGNPLKNVSA---IAGLQSIKTLDLTSTQITDVTPL--AGLSNLQVLYLDLNQITNIS-P 146

Query: 660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFN 719
           L   + L             + L+I +   S    L N+  L TL   +  +  + P   
Sbjct: 147 LAGLTNL-------------QYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP--- 190

Query: 720 GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ 759
              +  NL  + ++    I D++ +    NL  ++L N  
Sbjct: 191 -LASLPNLIEVHLKNNQ-ISDVSPLANTSNLFIVTLTNQT 228

>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 = 51.6 bits (124), Expect = 4e-07
 Identities = 37/169 (21%), Positives = 66/169 (39%), Gaps = 12/169 (7%)

Query: 505 LSLWGSSIEYLPE-TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA 563
           L L  + I  L        +  L +    L+         + ++K LDL+    +T +  
Sbjct: 68  LELKDNQITDLAPLKNLTKITELELSGNPLKNVS--AIAGLQSIKTLDLTST-QITDVTP 124

Query: 564 EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS 623
            +  L NL+ L L    I  + S +  L NL+ L +   +   L P    ++L  L    
Sbjct: 125 -LAGLSNLQVLYLDLNQITNI-SPLAGLTNLQYLSIGNAQVSDLTP---LANLSKLTTLK 179

Query: 624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS 672
               ++ ++   P      L E+    NQI ++S  L + S LF +  +
Sbjct: 180 ADDNKISDIS--PLASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLT 225

>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 = 62.8 bits (153), Expect = 9e-11
 Identities = 44/182 (24%), Positives = 63/182 (34%), Gaps = 12/182 (6%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L  + +         P   L  L +    L         ++  L  LDLS+N  L  
Sbjct: 35  ILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQ--VDGTLPVLGTLDLSHN-QLQS 91

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMRHFHLIPARVFSSLLSL 619
           LP     L  L  L++S   +  LP   +  L  L+ L L G      +P  + +    L
Sbjct: 92  LPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKL 150

Query: 620 KVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS---WKLC 676
           +  SL +  L EL     N    LD L    N +Y I      +  L         W  C
Sbjct: 151 EKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPWL-C 209

Query: 677 SC 678
           +C
Sbjct: 210 NC 211

>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 = 55.9 bits (135), Expect = 2e-08
 Identities = 33/140 (23%), Positives = 51/140 (36%), Gaps = 9/140 (6%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS 580
                L +   +L  F          L  L+L    +LT+L  +   L  L  L+LS+  
Sbjct: 31  KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVDGT-LPVLGTLDLSHNQ 88

Query: 581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN-- 638
           ++ LP     L  L +L +        +P      L  L+   L   EL  L   PP   
Sbjct: 89  LQSLPLLGQTLPALTVLDVSF-NRLTSLPLGALRGLGELQELYLKGNELKTL---PPGLL 144

Query: 639 -QTTILDELECLGNQIYEIS 657
             T  L++L    N + E+ 
Sbjct: 145 TPTPKLEKLSLANNNLTELP 164

>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 = 61.2 bits (149), Expect = 2e-10
 Identities = 38/246 (15%), Positives = 76/246 (30%), Gaps = 34/246 (13%)

Query: 501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           ++    +    I+ +P  P P  QTL +  T L   P   F ++  +  + +S ++ L Q
Sbjct: 12  QEEDFRVTCKDIQRIPSLP-PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQ 70

Query: 561 LPAEMGA---LINLRCLNLSNT-SIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSS 615
           L +   +   L  +  + + NT ++  +  +    L  LK L +               S
Sbjct: 71  LES--HSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYS 128

Query: 616 LLSLKVFSLFSTELIELHRMPPNQ----TTILDELECLGNQIYEISITLGSASALFKINF 671
                 F L  T+   +  +P N           L+   N    +     + + L     
Sbjct: 129 TDIF--FILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKL----- 181

Query: 672 SWKLCSCIKRLTIMHNLDSHSID---LRNMMH-LETLNIVECSLERVDP-TFNGWTN--F 724
                     + +  N     ID      +      L++ + S+  +             
Sbjct: 182 --------DAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIA 233

Query: 725 HNLHHL 730
            N   L
Sbjct: 234 RNTWTL 239

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

 Score = 63.8 bits (156), Expect = 2e-10
 Identities = 67/271 (24%), Positives = 100/271 (36%), Gaps = 42/271 (15%)

Query: 515 LPETPCPHLQTLLVRFTVLE-IFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLR 572
           +P  P   LQ L +         P     +   L  LDLS N      +P   G+   L 
Sbjct: 263 IPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGN-HFYGAVPPFFGSCSLLE 321

Query: 573 CLNLSNTSIE-ELPSE-IMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTEL 629
            L LS+ +   ELP + ++ ++ LK+L L     F   +P  + +   SL    L S   
Sbjct: 322 SLALSSNNFSGELPMDTLLKMRGLKVLDL-SFNEFSGELPESLTNLSASLLTLDLSSNNF 380

Query: 630 I-----ELHRMPPNQTTILDELECLG-NQIY-EISITLGSASALFKI-----NFSWKLCS 677
                  L + P N    L     L  N    +I  TL + S L  +       S  + S
Sbjct: 381 SGPILPNLCQNPKNTLQELY----LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPS 436

Query: 678 CIKRLTIMHNLD------SHSI--DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHH 729
            +  L+ + +L          I  +L  +  LETL +    L    P  +G +N  NL+ 
Sbjct: 437 SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIP--SGLSNCTNLNW 494

Query: 730 LSIRVCPVIRDLT-----WIREAPNLQFLSL 755
           +S+        LT     WI    NL  L L
Sbjct: 495 ISLSNN----RLTGEIPKWIGRLENLAILKL 521

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

 Score = 54.1 bits (131), Expect = 2e-07
 Identities = 45/202 (22%), Positives = 70/202 (34%), Gaps = 20/202 (9%)

Query: 520 CPHLQTLLVRFTVLE-IFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLRCLNLS 577
              L+TL++ F  L    P     +   L  + LS N  LT ++P  +G L NL  L LS
Sbjct: 465 VKTLETLILDFNDLTGEIPSGLS-NCTNLNWISLSNN-RLTGEIPKWIGRLENLAILKLS 522

Query: 578 NTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMP 636
           N S    +P+E+   ++L  L L+       IPA +F     +    +     + +    
Sbjct: 523 NNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDG 582

Query: 637 PNQTTILDELECLGNQIYEISITLGSASALFKINFSW-----KLCSCIKRLTIMHNLD-- 689
             +         L       S  L   S     N +                 M  LD  
Sbjct: 583 MKKECHGAGN--LLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMS 640

Query: 690 ----SHSI--DLRNMMHLETLN 705
               S  I  ++ +M +L  LN
Sbjct: 641 YNMLSGYIPKEIGSMPYLFILN 662

>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 = 51.1 bits (123), Expect = 2e-06
 Identities = 46/230 (20%), Positives = 76/230 (33%), Gaps = 36/230 (15%)

Query: 545 GALKVLDLSY---NLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
             +  +DLS    N+  + + + + +L  L  L LSN+ I    S      +L  L L  
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR 109

Query: 602 MRHFHLIPARV-FSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEIS 657
                 +       S   LK  ++ S  L        +    L+ LE L    N I    
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNVSSNTL--DFPGKVSGGLKLNSLEVLDLSANSIS--- 164

Query: 658 ITLGSASALFKINFSWKLCSCIKRLTIMH---NLDSHSIDLRNMMHLETLNIVECSLERV 714
              G+          W L      L  +    N  S  +D+   ++LE L++   +    
Sbjct: 165 ---GA------NVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTG 215

Query: 715 DPTFNGWTNFHNLHHLSIRVCPVIRDLT-----WIREAPNLQFLSLVNCQ 759
            P      +   L HL I        L+      I     L+ L++ + Q
Sbjct: 216 IPFLG---DCSALQHLDISGN----KLSGDFSRAISTCTELKLLNISSNQ 258

>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 = 48.8 bits (117), Expect = 7e-06
 Identities = 45/266 (16%), Positives = 89/266 (33%), Gaps = 38/266 (14%)

Query: 520 CPHLQTLLVRFTVLE-IFPHRFFESMGALKVLDLSYNLDLTQLPA--EMGALINLRCLNL 576
              L++L +  + +        F+   +L  LDLS N     +     +G+   L+ LN+
Sbjct: 76  LTGLESLFLSNSHINGSVSG--FKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNV 133

Query: 577 SNTSIE--ELPSEIMYLKNLKILLLDGMRHFHLIPA--RVFSSLLSLKVFSLFSTELIEL 632
           S+ +++     S  + L +L++L L              +      LK  ++   ++   
Sbjct: 134 SSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKIS-- 191

Query: 633 HRMPPNQTTILDELECLGNQIY-EISITLGSASALFKINFS------------WKLCSCI 679
             +  ++   L+ L+   N     I   LG  SAL  ++ S                  +
Sbjct: 192 GDVDVSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTE-L 249

Query: 680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLE-RVDPTFNGWTNFHNLHHLSIRVCPVI 738
           K L I  N     I    +  L+ L++ E      +    +G      L  L +      
Sbjct: 250 KLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSG--ACDTLTGLDLSGN--- 304

Query: 739 RDLT-----WIREAPNLQFLSLVNCQ 759
                    +      L+ L+L +  
Sbjct: 305 -HFYGAVPPFFGSCSLLESLALSSNN 329

>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 = 46.8 bits (112), Expect = 3e-05
 Identities = 32/112 (28%), Positives = 49/112 (43%), Gaps = 14/112 (12%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLRCLNLSN 578
                   +   V        F++ G++  LD+SYN+ L+  +P E+G++  L  LNL +
Sbjct: 607 LSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNM-LSGYIPKEIGSMPYLFILNLGH 665

Query: 579 TSIE-ELPSEIMYLKNLKIL-----LLDGMRHFHLIPARVFSSLLSLKVFSL 624
             I   +P E+  L+ L IL      LDG      IP    S+L  L    L
Sbjct: 666 NDISGSIPDEVGDLRGLNILDLSSNKLDGR-----IPQ-AMSALTMLTEIDL 711

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 60.0 bits (146), Expect = 5e-10
 Identities = 45/184 (24%), Positives = 73/184 (39%), Gaps = 12/184 (6%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           +L L  + +  LP         L+ L +    L+  P   F+ +  L+ L ++ N  L  
Sbjct: 41  KLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN-KLQA 99

Query: 561 LPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           LP  +   L+NL  L L    ++ LP  +   L  L  L L        +P  VF  L S
Sbjct: 100 LPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY-NELQSLPKGVFDKLTS 158

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEIS----ITLGSASALFKINFSWK 674
           LK   L++ +L  +     ++ T L  L+   NQ+  +      +L     L      W 
Sbjct: 159 LKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPWD 218

Query: 675 LCSC 678
            C+C
Sbjct: 219 -CTC 221

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 41.9 bits (99), Expect = 5e-04
 Identities = 27/110 (24%), Positives = 47/110 (42%), Gaps = 5/110 (4%)

Query: 545 GALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMR 603
                +D S    LT +P+      + + L+L +  +  LPS+    L  L++L L+   
Sbjct: 16  NNKNSVDCSSK-KLTAIPS--NIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLND-N 71

Query: 604 HFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
               +PA +F  L +L+   +   +L  L     +Q   L EL    NQ+
Sbjct: 72  KLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQL 121

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 60.2 bits (146), Expect = 1e-09
 Identities = 33/153 (21%), Positives = 49/153 (32%), Gaps = 8/153 (5%)

Query: 504 RLSLWGSSIEYLPETPCPH----LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L L  +++  L     P     L +LL+    L       F  +  L+ LDLS N  L 
Sbjct: 43  LLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH-LH 101

Query: 560 QLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLL 617
            L   +   L  L  L L N  I  +       +  L+ L L   +     P  +     
Sbjct: 102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQ-ISRFPVELIKDGN 160

Query: 618 SLKVFSLFSTELIELHRMPPNQTTILDELECLG 650
            L    L      +L ++P      L      G
Sbjct: 161 KLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNG 193

>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 = 58.0 bits (140), Expect = 9e-09
 Identities = 25/129 (19%), Positives = 51/129 (39%), Gaps = 9/129 (6%)

Query: 504 RLSLWGSSIEYLPETPC-----PHLQTLLVRFTVLE-IFPHRFFESMGALKVLDLSYNLD 557
            L L  + ++ L +          LQ L +    +             +L  L++S N  
Sbjct: 352 TLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSN-I 410

Query: 558 LTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLL 617
           LT           ++ L+L +  I+ +P +++ L+ L+ L +   +    +P  +F  L 
Sbjct: 411 LTDTIFRCL-PPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQ-LKSVPDGIFDRLT 468

Query: 618 SLKVFSLFS 626
           SL+   L +
Sbjct: 469 SLQKIWLHT 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 = 57.6 bits (139), Expect = 1e-08
 Identities = 34/242 (14%), Positives = 76/242 (31%), Gaps = 7/242 (2%)

Query: 521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNT 579
                L +    +         S+  L++L +S+N  +  L   +      L  L+LS+ 
Sbjct: 21  QKTTILNISQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQELEYLDLSHN 79

Query: 580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQ 639
            + ++        NLK L L       L   + F ++  LK   L +T L +   +P   
Sbjct: 80  KLVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAH 137

Query: 640 TTILDE-LECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNM 698
             I    L        +             ++  +        +  +      +++L N+
Sbjct: 138 LNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNI 197

Query: 699 MHLETLNIVECSLERV-DPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN 757
             +   N     L  +     N   +   L+++          +  +     + + S+ N
Sbjct: 198 KCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTW-NSFIRILQLVWHTTVWYFSISN 256

Query: 758 CQ 759
            +
Sbjct: 257 VK 258

>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 = 55.6 bits (134), Expect = 5e-08
 Identities = 27/128 (21%), Positives = 44/128 (34%), Gaps = 6/128 (4%)

Query: 522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTS 580
           ++       +   +        +     LD S NL LT    E  G L  L  L L    
Sbjct: 301 NMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNL-LTDTVFENCGHLTELETLILQMNQ 359

Query: 581 IEELPSEI---MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELH-RMP 636
           ++EL         +K+L+ L +      +       S   SL   ++ S  L +   R  
Sbjct: 360 LKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCL 419

Query: 637 PNQTTILD 644
           P +  +LD
Sbjct: 420 PPRIKVLD 427

>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 = 55.3 bits (133), Expect = 6e-08
 Identities = 45/261 (17%), Positives = 82/261 (31%), Gaps = 35/261 (13%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L++  + I  L  +       L+ L++    ++      F+    L+ LDLS+N  L +
Sbjct: 25  ILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KLVK 83

Query: 561 LPAEMGALINLRCLNLSNTSIEELP--SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +       +NL+ L+LS  + + LP   E   +  LK L L    H         + L  
Sbjct: 84  ISC--HPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLST-THLEKSSVLPIAHLNI 140

Query: 619 LKVF--------------SLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT----- 659
            KV                L       LH + P        L+     +  + ++     
Sbjct: 141 SKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCV 200

Query: 660 ------LGSASALFKINF-SWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLE 712
                     S L K+          +  +    N     + L     +   +I    L+
Sbjct: 201 LEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQ 260

Query: 713 RVDPTFNGWTNFHNLHHLSIR 733
                 +   +  +L  LSI 
Sbjct: 261 GQLDFRDFDYSGTSLKALSIH 281

>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 = 44.5 bits (105), Expect = 1e-04
 Identities = 37/304 (12%), Positives = 101/304 (33%), Gaps = 34/304 (11%)

Query: 502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
           + +  L  +   Y             +    L      +   +  L+++  +     +  
Sbjct: 196 NIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSIS 255

Query: 562 PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV 621
             ++   ++ R  + S TS++ L      +  +          F    + ++    ++ +
Sbjct: 256 NVKLQGQLDFRDFDYSGTSLKAL-----SIHQVVS------DVFGFPQSYIYEIFSNMNI 304

Query: 622 FSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKR 681
            +   +    +H + P++ +    L+   N +        +   L +          ++ 
Sbjct: 305 KNFTVSGTRMVHMLCPSKISPFLHLDFSNNLL--TDTVFENCGHLTE----------LET 352

Query: 682 LTIMHN----LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV 737
           L +  N    L   +     M  L+ L+I + S+   +      +   +L  L++    +
Sbjct: 353 LILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKK-GDCSWTKSLLSLNMSSN-I 410

Query: 738 IRDLTWIREAPNLQFLSLVNCQALSEIIESAGS----SEVAESHNYFAYLMVIDLDSLPS 793
           + D  +    P ++ L L + + +  I +         E+  + N    +     D L S
Sbjct: 411 LTDTIFRCLPPRIKVLDLHSNK-IKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTS 469

Query: 794 LKRI 797
           L++I
Sbjct: 470 LQKI 473

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 55.0 bits (133), Expect = 2e-08
 Identities = 25/129 (19%), Positives = 50/129 (38%), Gaps = 8/129 (6%)

Query: 504 RLSLWGSSIEYLPETPC----PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT 559
            L L  +    L  T      P L+ +      +       FE    +  + L+ N  L 
Sbjct: 36  ELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR-LE 94

Query: 560 QLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLL 617
            +  +M   L +L+ L L +  I  + ++  + L ++++L L   +    +    F +L 
Sbjct: 95  NVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLH 153

Query: 618 SLKVFSLFS 626
           SL   +L +
Sbjct: 154 SLSTLNLLA 162

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 34/141 (24%), Positives = 53/141 (37%), Gaps = 16/141 (11%)

Query: 548 KVLDLSYNLDLTQLP--AEMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMRH 604
             L L+ N + T L        L  LR +N SN  I ++          +  +LL   R 
Sbjct: 35  AELRLNNN-EFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR- 92

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL---GNQIYEIS---- 657
              +  ++F  L SLK   L S  +  +     +    L  +  L    NQI  ++    
Sbjct: 93  LENVQHKMFKGLESLKTLMLRSNRITCV---GNDSFIGLSSVRLLSLYDNQITTVAPGAF 149

Query: 658 ITLGSASALFKINFSWKLCSC 678
            TL S S L  +   +  C+C
Sbjct: 150 DTLHSLSTLNLLANPFN-CNC 169

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 53.9 bits (130), Expect = 3e-08
 Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 8/110 (7%)

Query: 524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA---LINLRCLNLSNTS 580
             + +    +++ P   F     L+ +DLS N  +++L     A   L +L  L L    
Sbjct: 35  TEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNN-QISELAP--DAFQGLRSLNSLVLYGNK 91

Query: 581 IEELPSEIMY-LKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
           I ELP  +   L +L++LLL+     + +    F  L +L + SL+  +L
Sbjct: 92  ITELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLLSLYDNKL 140

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 47.3 bits (113), Expect = 5e-06
 Identities = 36/141 (25%), Positives = 58/141 (41%), Gaps = 17/141 (12%)

Query: 548 KVLDLSYNLDLTQLPAEMGA---LINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMR 603
             + L  N  +  +P   GA      LR ++LSN  I EL  +    L++L  L+L G +
Sbjct: 35  TEIRLEQN-TIKVIPP--GAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNK 91

Query: 604 HFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSA 663
               +P  +F  L SL++  L + ++  L          L+ L    N++   +I  G+ 
Sbjct: 92  -ITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQ--TIAKGTF 148

Query: 664 SALFKINFSWKL------CSC 678
           S L  I     L      C C
Sbjct: 149 SPLRAIQTMH-LAQNPFICDC 168

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 54.1 bits (130), Expect = 6e-08
 Identities = 31/169 (18%), Positives = 52/169 (30%), Gaps = 13/169 (7%)

Query: 502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
           +   +   + +  L +   P L+ L +       F         AL  LDLS N +L + 
Sbjct: 130 NVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGER 189

Query: 562 P----AEMGALINLRCLNLSNTSIEELPSEIM----YLKNLKILLLDGMRHFHLIPARVF 613
                        L+ L L N  +E               L+ L L          A   
Sbjct: 190 GLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC 249

Query: 614 SSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL-GNQIYEISITLG 661
                L   +L  T L ++ +  P + ++LD    L  N++        
Sbjct: 250 DWPSQLNSLNLSFTGLKQVPKGLPAKLSVLD----LSYNRLDRNPSPDE 294

>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 = 51.9 bits (125), Expect = 3e-07
 Identities = 47/244 (19%), Positives = 84/244 (34%), Gaps = 35/244 (14%)

Query: 523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA---LINLRCLNLSNT 579
            + L + F  L       F S   L+VLDLS   ++  +    GA   L +L  L L+  
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIED--GAYQSLSHLSTLILTGN 86

Query: 580 SIEELPSEI-MYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN 638
            I+ L       L +L+ L+     +   +       L +LK  ++    +         
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSF---KLP 142

Query: 639 QT----TILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHN-LDSHSI 693
           +     T L+ L+   N+I   SI       L       ++      L +  N ++    
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQ--SIYCTDLRVL------HQMPLLNLSLDLSLNPMNFIQP 194

Query: 694 DLRNMMHLETLNIVECSLERVDP-TFNGWTNFHNLHHLSIR------VCPVIRDL-TWIR 745
                + L+ L +    L+ V    F+  T   +L  + +        CP I  L  W+ 
Sbjct: 195 GAFKEIRLKELALDTNQLKSVPDGIFDRLT---SLQKIWLHTNPWDCSCPRIDYLSRWLN 251

Query: 746 EAPN 749
           +   
Sbjct: 252 KNSQ 255

>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 = 50.7 bits (122), Expect = 8e-07
 Identities = 31/136 (22%), Positives = 55/136 (40%), Gaps = 13/136 (9%)

Query: 504 RLSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L G+ I+ L     +    LQ L+   T L    +     +  LK L++++NL +  
Sbjct: 80  TLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL-IQS 138

Query: 561 LPAEMGA---LINLRCLNLSNTSIEELPSEIM-YLKNLKILLLD-GMRHFHL--IPARVF 613
                     L NL  L+LS+  I+ +    +  L  + +L L   +    +  I    F
Sbjct: 139 FKLP-EYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 197

Query: 614 SSLLSLKVFSLFSTEL 629
              + LK  +L + +L
Sbjct: 198 KE-IRLKELALDTNQL 212

>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 = 51.0 bits (122), Expect = 1e-06
 Identities = 45/326 (13%), Positives = 98/326 (30%), Gaps = 36/326 (11%)

Query: 504 RLSLWGSSIEYLPET---PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            LSL  +SI  L          L+ L +    +       F     L+ LD+S+N  L  
Sbjct: 56  ALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR-LQN 114

Query: 561 LPAEMGALINLRCLNLSNTSIEELP--SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS 618
           +      + +LR L+LS    + LP   E   L  L  L L   +            +  
Sbjct: 115 ISC--CPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAK----FRQLDLLPVAH 168

Query: 619 LKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSC 678
           L +  +     +  + +   +T  L         +     +L   S    ++ +      
Sbjct: 169 LHLSCILLD--LVSYHIKGGETESLQIPNTTVLHLVFHPNSL--FSVQVNMSVNALGHLQ 224

Query: 679 IKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVI 738
           +  + +    +   +            ++  +L+ ++ T+                   I
Sbjct: 225 LSNIKLNDE-NCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNI 283

Query: 739 RDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRIC 798
            +LT I E  + +  +       S +IE          +  F +           +    
Sbjct: 284 YNLT-ITERIDREEFTYSETALKSLMIEHV-------KNQVFLFSKEALYSVFAEMN--- 332

Query: 799 HGTMPFPSLQNVSVTNCPNLRELPFN 824
                   ++ +S+++ P +  +   
Sbjct: 333 --------IKMLSISDTPFIHMVCPP 350

>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 = 50.3 bits (120), Expect = 2e-06
 Identities = 24/143 (16%), Positives = 48/143 (33%), Gaps = 13/143 (9%)

Query: 522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTS 580
            +   ++  +           S  +   L+ + N+  T    +    L  L+ L L    
Sbjct: 330 EMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNV-FTDSVFQGCSTLKRLQTLILQRNG 388

Query: 581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSL----LSLKVFSLFSTELIEL--HR 634
           ++      +  KN+  L    +   + + +  +        S+ V +L S  L       
Sbjct: 389 LKNFFKVALMTKNMSSLETLDVSL-NSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRC 447

Query: 635 MPPNQTTILDELECLGNQIYEIS 657
           +PP    +LD L    N+I  I 
Sbjct: 448 LPPK-VKVLD-LHN--NRIMSIP 466

>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 = 46.4 bits (110), Expect = 3e-05
 Identities = 26/131 (19%), Positives = 50/131 (38%), Gaps = 13/131 (9%)

Query: 504 RLSLWGSSIEYLPETPCP--HLQTLLVRFTVLEIFPH----RFFESMGALKVLDLSYNLD 557
            L L  + ++   +      ++ +L      L         R      ++ VL+LS N  
Sbjct: 381 TLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSN-- 438

Query: 558 LTQLPAEM--GALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSS 615
              L   +       ++ L+L N  I  +P ++ +L+ L+ L +   +    +P  VF  
Sbjct: 439 --MLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQ-LKSVPDGVFDR 495

Query: 616 LLSLKVFSLFS 626
           L SL+   L  
Sbjct: 496 LTSLQYIWLHD 506

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 50.0 bits (120), Expect = 1e-06
 Identities = 32/192 (16%), Positives = 63/192 (32%), Gaps = 26/192 (13%)

Query: 568 LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST 627
           L N    NL   S+ +L      L  ++    D      L          +LK   L   
Sbjct: 18  LANAVKQNLGKQSVTDL-VSQKELSGVQNFNGDNSNIQSLAG---MQFFTNLKELHLSHN 73

Query: 628 ELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHN 687
           ++ +L   P    T L+EL    N++  +       + +            + RL + +N
Sbjct: 74  QISDLS--PLKDLTKLEELSVNRNRLKNL-------NGIPSAC--------LSRLFLDNN 116

Query: 688 LDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREA 747
               +  L ++ +LE L+I    L+ +            L  L +     I +   +   
Sbjct: 117 ELRDTDSLIHLKNLEILSIRNNKLKSIVML----GFLSKLEVLDLHGNE-ITNTGGLTRL 171

Query: 748 PNLQFLSLVNCQ 759
             + ++ L   +
Sbjct: 172 KKVNWIDLTGQK 183

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 31/216 (14%), Positives = 68/216 (31%), Gaps = 51/216 (23%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD 600
            + +  ++  +   + ++  L   M    NL+ L+LS+  I +L S +  L  L+ L ++
Sbjct: 37  QKELSGVQNFNGDNS-NIQSLAG-MQFFTNLKELHLSHNQISDL-SPLKDLTKLEELSVN 93

Query: 601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL 660
             R                            L  +    +  L  L    N++ +   +L
Sbjct: 94  RNR----------------------------LKNLNGIPSACLSRLFLDNNELRDTD-SL 124

Query: 661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNG 720
                L             + L+I +N     + L  +  LE L++    +         
Sbjct: 125 IHLKNL-------------EILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITNTGG---- 167

Query: 721 WTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLV 756
            T    ++ + +       +     + P L   + V
Sbjct: 168 LTRLKKVNWIDLTGQK-CVNEPVKYQ-PELYITNTV 201

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 41.2 bits (97), Expect = 9e-04
 Identities = 21/131 (16%), Positives = 44/131 (33%), Gaps = 11/131 (8%)

Query: 547 LKVLDLSYNL--DLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRH 604
           L  L L  N   D   L      L NL  L++ N  ++ +   + +L  L++L L G   
Sbjct: 108 LSRLFLDNNELRDTDSL----IHLKNLEILSIRNNKLKSI-VMLGFLSKLEVLDLHGNEI 162

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSAS 664
            +       + L  +    L   + +        +  I + ++    +       + +  
Sbjct: 163 TNTGG---LTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPDGRWISP-YYISNGG 218

Query: 665 ALFKINFSWKL 675
           +       W+L
Sbjct: 219 SYVDGCVLWEL 229

>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 = 50.5 bits (120), Expect = 2e-06
 Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 6/110 (5%)

Query: 548 KVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHL 607
           +VL L++  DLT L   +  L+ +  L+LS+  +  LP  +  L+ L++L        ++
Sbjct: 444 RVLHLAHK-DLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 501

Query: 608 IPARVFSSLLSLKVFSLFSTELIELHRMPP-NQTTILDELECLGNQIYEI 656
                 ++L  L+   L +  L +   + P      L  L   GN + + 
Sbjct: 502 DG---VANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQE 548

>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 = 50.5 bits (120), Expect = 2e-06
 Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 2/108 (1%)

Query: 494 KSADSWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLS 553
           K+ D  R  +   L    +         +    ++     ++      E +  +  LDLS
Sbjct: 412 KAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLS 471

Query: 554 YNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
           +N  L  LP  + AL  L  L  S+ ++E +   +  L  L+ LLL  
Sbjct: 472 HN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN 517

>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 = 42.4 bits (99), Expect = 6e-04
 Identities = 22/102 (21%), Positives = 35/102 (34%), Gaps = 11/102 (10%)

Query: 505 LSLWGSSIEYLPE--TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
           L L  + +  LP        L+ L      LE        ++  L+ L L  N  L Q  
Sbjct: 468 LDLSHNRLRALPPALAALRCLEVLQASDNALENVDG--VANLPRLQELLLCNNR-LQQSA 524

Query: 563 A--EMGALINLRCLNLSNTSIEELPSEIMYLK----NLKILL 598
           A   + +   L  LNL   S+ +       L     ++  +L
Sbjct: 525 AIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL 566

>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 = 42.1 bits (98), Expect = 7e-04
 Identities = 30/208 (14%), Positives = 59/208 (28%), Gaps = 20/208 (9%)

Query: 552 LSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPAR 611
           +           +      L    LS      L SE+   K L+ L  +           
Sbjct: 332 VLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWC------- 384

Query: 612 VFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINF 671
               LL++ +       L+               L+ +          L S   L + + 
Sbjct: 385 ----LLTIILLMRALDPLLYE----KETLQYFSTLKAVDPMRAAYLDDLRS-KFLLENSV 435

Query: 672 SWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS 731
                + ++ L + H   +    L  ++ +  L++    L  + P          L  L 
Sbjct: 436 LKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPAL---AALRCLEVLQ 492

Query: 732 IRVCPVIRDLTWIREAPNLQFLSLVNCQ 759
                 + ++  +   P LQ L L N +
Sbjct: 493 ASDNA-LENVDGVANLPRLQELLLCNNR 519

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 49.4 bits (117), Expect = 3e-06
 Identities = 16/91 (17%), Positives = 26/91 (28%), Gaps = 4/91 (4%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIEELPSEI-MYLKNLKILL 598
                 L  L +     L  L       L  LR L +  + +  +  +   +   L  L 
Sbjct: 27  LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN 86

Query: 599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
           L        +  +     LSL+   L    L
Sbjct: 87  LSF-NALESLSWKTVQG-LSLQELVLSGNPL 115

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 45.9 bits (108), Expect = 4e-05
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 521 PHLQTL-LVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSN 578
            +L  L +     L+    R    +G L+ L +  +  L  +  +       L  LNLS 
Sbjct: 31  ENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSF 89

Query: 579 TSIEELPSEIMYLKNLKILLLDG 601
            ++E L  + +   +L+ L+L G
Sbjct: 90  NALESLSWKTVQGLSLQELVLSG 112

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 45.9 bits (108), Expect = 4e-05
 Identities = 22/134 (16%), Positives = 41/134 (30%), Gaps = 7/134 (5%)

Query: 570 NLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
            LRC              +   +NL  L ++  +H   +  R    L  L+  ++  + L
Sbjct: 12  GLRCTRDGALDS---LHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGL 68

Query: 630 IELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFS---WKLCSCIKRLTIMH 686
             +     + T  L  L    N +  +S       +L ++  S      CSC  R     
Sbjct: 69  RFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLH-CSCALRWLQRW 127

Query: 687 NLDSHSIDLRNMMH 700
             +         + 
Sbjct: 128 EEEGLGGVPEQKLQ 141

>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 = 49.3 bits (117), Expect = 5e-06
 Identities = 43/262 (16%), Positives = 89/262 (33%), Gaps = 48/262 (18%)

Query: 504 RLSLWGSSI-EYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNL--DLTQ 560
           + +L   S+ + + +     +  ++   + ++       + +  +  L L+ N   D+  
Sbjct: 25  KDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ--GIQYLPNVTKLFLNGNKLTDIKP 82

Query: 561 LPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG--------------MRHFH 606
           L      L NL  L L    I++L S +  LK LK L L+               +   +
Sbjct: 83  L----TNLKNLGWLFLDENKIKDL-SSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLY 137

Query: 607 L-------IPARVFSSLLSLKVFSLFS---TELIELHRMPPNQTTILDELECLGNQIYEI 656
           L       I     S L  L   SL     ++++ L  +     T L  L    N I ++
Sbjct: 138 LGNNKITDITV--LSRLTKLDTLSLEDNQISDIVPLAGL-----TKLQNLYLSKNHISDL 190

Query: 657 SITLGSASALFKINFS-----WKLCSCIKRLTIMHNLDSHSIDLRNMMHL-ETLNIVECS 710
              L     L  +         K  +    L + + + +    L     + +  +  + +
Sbjct: 191 R-ALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPN 249

Query: 711 LERVDPTFNGWTNFHNLHHLSI 732
           ++   P F    +F     ++I
Sbjct: 250 VKWHLPEFTNEVSFIFYQPVTI 271

>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 = 46.6 bits (110), Expect = 3e-05
 Identities = 46/291 (15%), Positives = 97/291 (33%), Gaps = 80/291 (27%)

Query: 534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
           +IFP    ++       +L     +T        L ++  +  +N+ I+ +   I YL N
Sbjct: 13  QIFP---DDAFAETIKDNLKKK-SVTDAV-TQNELNSIDQIIANNSDIKSV-QGIQYLPN 66

Query: 594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
           +  L L+G +   + P    ++L +L                          L    N+I
Sbjct: 67  VTKLFLNGNKLTDIKP---LTNLKNLG------------------------WLFLDENKI 99

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLER 713
            ++S                                     L+++  L++L++    +  
Sbjct: 100 KDLS------------------------------------SLKDLKKLKSLSLEHNGISD 123

Query: 714 VDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEV 773
           ++       +   L  L +     I D+T +     L  LSL + Q +S+I+  AG +++
Sbjct: 124 INGL----VHLPQLESLYLGNNK-ITDITVLSRLTKLDTLSLEDNQ-ISDIVPLAGLTKL 177

Query: 774 AE---SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
                S N+ + L    L  L +L  +   +    +      +N      +
Sbjct: 178 QNLYLSKNHISDLR--ALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTV 226

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 47.0 bits (112), Expect = 9e-06
 Identities = 45/167 (26%), Positives = 66/167 (39%), Gaps = 21/167 (12%)

Query: 524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGA---LINLRCLNLSNTS 580
           + L ++ T L       F  +  L  L+L YN  L  L A  G    L  L  L L+N  
Sbjct: 38  EKLDLQSTGLATLSDATFRGLTKLTWLNLDYN-QLQTLSA--GVFDDLTELGTLGLANNQ 94

Query: 581 IEELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPP-- 637
           +  LP  +  +L  L  L L G +    +P+ VF  L  LK   L +    +L  +P   
Sbjct: 95  LASLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGVFDRLTKLKELRLNTN---QLQSIPAGA 150

Query: 638 -NQTTILDELECLGNQIYEISITLGSASALFKINFSWKL-----CSC 678
            ++ T L  L    NQ+   S+  G+   L K+           CS 
Sbjct: 151 FDKLTNLQTLSLSTNQL--QSVPHGAFDRLGKLQTITLFGNQFDCSR 195

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 44.3 bits (105), Expect = 7e-05
 Identities = 36/133 (27%), Positives = 54/133 (40%), Gaps = 11/133 (8%)

Query: 504 RLSLWGSSIEYLPETPCPH---LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
           +L L  + +  L +        L  L + +  L+      F+ +  L  L L+ N  L  
Sbjct: 39  KLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN-QLAS 97

Query: 561 LPAEMGA---LINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSL 616
           LP   G    L  L  L L    ++ LPS +   L  LK L L+       IPA  F  L
Sbjct: 98  LPL--GVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT-NQLQSIPAGAFDKL 154

Query: 617 LSLKVFSLFSTEL 629
            +L+  SL + +L
Sbjct: 155 TNLQTLSLSTNQL 167

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 33/129 (25%), Positives = 51/129 (39%), Gaps = 11/129 (8%)

Query: 505 LSLWGSSIEYLPE---TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL 561
           L+L  + ++ L          L TL +    L   P   F+ +  L  L L  N  L  L
Sbjct: 64  LNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGN-QLKSL 122

Query: 562 PAEMGA---LINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSLL 617
           P+  G    L  L+ L L+   ++ +P+     L NL+ L L        +P   F  L 
Sbjct: 123 PS--GVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPHGAFDRLG 179

Query: 618 SLKVFSLFS 626
            L+  +LF 
Sbjct: 180 KLQTITLFG 188

>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 = 47.0 bits (112), Expect = 1e-05
 Identities = 39/229 (17%), Positives = 83/229 (36%), Gaps = 27/229 (11%)

Query: 504 RLSLWGSSIEYL-PETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
           + +L   S+     +     +  ++   + ++       + +  +  L L+ N  LT + 
Sbjct: 28  KDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ--GIQYLPNVTKLFLNGNK-LTDIK 84

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF 622
             +  L NL  L L    +++L S +  LK LK L L+      +        L  L+  
Sbjct: 85  -PLANLKNLGWLFLDENKVKDL-SSLKDLKKLKSLSLEHNGISDING---LVHLPQLESL 139

Query: 623 SLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRL 682
            L + ++ ++     ++ T LD L    NQI +I                    + ++ L
Sbjct: 140 YLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIV--------------PLAGLTKLQNL 183

Query: 683 TIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS 731
            +  N  S    L  + +L+ L +       ++   N  +N    + + 
Sbjct: 184 YLSKNHISDLRALAGLKNLDVLELFSQEC--LNKPINHQSNLVVPNTVK 230

>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 = 42.3 bits (100), Expect = 4e-04
 Identities = 26/152 (17%), Positives = 53/152 (34%), Gaps = 16/152 (10%)

Query: 510 SSIEYLPETPCPHLQTLLV---RFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMG 566
             +  L +     L++L +     + +          +  L+ L L  N  +T +   + 
Sbjct: 103 KDLSSLKD--LKKLKSLSLEHNGISDIN-----GLVHLPQLESLYLGNNK-ITDITV-LS 153

Query: 567 ALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS 626
            L  L  L+L +  I ++   +  L  L+ L L       L      + L +L V  LFS
Sbjct: 154 RLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKNHISDLRA---LAGLKNLDVLELFS 209

Query: 627 TELIELHRMPPNQTTILDELECLGNQIYEISI 658
            E +       +   + + ++     +    I
Sbjct: 210 QECLNKPINHQSNLVVPNTVKNTDGSLVTPEI 241

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 47.1 bits (113), Expect = 1e-05
 Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 2/57 (3%)

Query: 547 LKVLDLSYNLDLT-QLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKILLLDG 601
           L  L +    +L   +P  +  L  L  L +++T++   +P  +  +K L  L    
Sbjct: 78  LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSY 134

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 42.9 bits (102), Expect = 3e-04
 Identities = 41/208 (19%), Positives = 66/208 (31%), Gaps = 43/208 (20%)

Query: 520 CPHLQTLLVRFTVL--EIFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLRCLNL 576
              L  L +  T +   I P  F   +  L  LD SYN  L+  LP  + +L NL  +  
Sbjct: 100 LTQLHYLYITHTNVSGAI-PD-FLSQIKTLVTLDFSYN-ALSGTLPPSISSLPNLVGITF 156

Query: 577 SNTSIE-ELPSEIMYLKNLKILL------LDG----------MRHFHL--------IPAR 611
               I   +P        L   +      L G          +    L            
Sbjct: 157 DGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVL 216

Query: 612 VFSSLLSLKVFSL----FSTELIELHRMPPNQTTILDELECLGNQIY-EISITLGSASAL 666
            F S  + +   L     + +L ++          L+ L+   N+IY  +   L     L
Sbjct: 217 -FGSDKNTQKIHLAKNSLAFDLGKVGLS-----KNLNGLDLRNNRIYGTLPQGLTQLKFL 270

Query: 667 FKINFSW-KLCSCIKRLTIMHNLDSHSI 693
             +N S+  LC  I +   +   D  + 
Sbjct: 271 HSLNVSFNNLCGEIPQGGNLQRFDVSAY 298

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 41.8 bits (99), Expect = 6e-04
 Identities = 19/91 (20%), Positives = 30/91 (32%), Gaps = 5/91 (5%)

Query: 543 SMGALKVLDLSYN-LDLT-QLPAEMGALINLRCLNLSNT-SIE-ELPSEIMYLKNLKILL 598
               +  LDLS   L     +P+ +  L  L  L +    ++   +P  I  L  L  L 
Sbjct: 48  QTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLY 107

Query: 599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
           +        IP    S + +L         L
Sbjct: 108 ITHTNVSGAIPD-FLSQIKTLVTLDFSYNAL 137

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 45.0 bits (107), Expect = 2e-05
 Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 548 KVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIM-YLKNLKILLLDGMRHFH 606
             L L  N   T +P E+    +L  ++LSN  I  L ++    +  L  L+L   R   
Sbjct: 34  TELYLDGN-QFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR-LR 91

Query: 607 LIPARVFSSLLSLKVFSLFSTEL 629
            IP R F  L SL++ SL   ++
Sbjct: 92  CIPPRTFDGLKSLRLLSLHGNDI 114

>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 = 44.9 bits (107), Expect = 2e-05
 Identities = 20/148 (13%), Positives = 50/148 (33%), Gaps = 18/148 (12%)

Query: 510 SSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALI 569
           + IEY       +++ L +       +       +  L+ L +      +     +  L 
Sbjct: 60  TGIEYAH-----NIKDLTINNIHATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLT 112

Query: 570 NLRCLNLSNTSIEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS-- 626
           +L  L++S+++ ++   ++I  L  +  + L        I      +L  LK  ++    
Sbjct: 113 SLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDG 170

Query: 627 -TELIELHRMPPNQTTILDELECLGNQI 653
             +   +          L++L      I
Sbjct: 171 VHDYRGIEDF-----PKLNQLYAFSQTI 193

>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 = 44.2 bits (105), Expect = 5e-05
 Identities = 27/167 (16%), Positives = 63/167 (37%), Gaps = 23/167 (13%)

Query: 568 LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST 627
           + +L  + L+N ++ +L + I Y  N+K L ++ +   +  P    S L +L+   +   
Sbjct: 43  MNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNP---ISGLSNLERLRIMGK 98

Query: 628 ELIELHRMPPNQTTILDELECLGNQIYEISIT-LGSASALFKINFSWKLCSCIKRLTIMH 686
           ++        +  T L  L+   +   +  +T + +   +               + + +
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKV-------------NSIDLSY 145

Query: 687 NLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI 732
           N     I  L+ +  L++LNI    +           +F  L+ L  
Sbjct: 146 NGAITDIMPLKTLPELKSLNIQFDGVHDYRGI----EDFPKLNQLYA 188

>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 = 46.8 bits (111), Expect = 3e-05
 Identities = 45/265 (16%), Positives = 83/265 (31%), Gaps = 36/265 (13%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSY-NLDLTQLPAEMGALINLRCLNLSN 578
           C  L+ L   +  +  +    +     L  L+LSY  +    L   +     L+ L + +
Sbjct: 264 CKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLD 323

Query: 579 T-SIEELPSEIMYLKNLKILLLDGMRHFHLIP---------ARVFSSLLSLKVFSLFSTE 628
                 L       K+L+ L +     F + P           V      L+    F  +
Sbjct: 324 YIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQ 383

Query: 629 -----LIELHRMPPNQTTI-LDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRL 682
                LI + R  PN T   L  +E        +        A+ +       C  ++RL
Sbjct: 384 MTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVE------HCKDLRRL 437

Query: 683 TIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNF----HNLHHLSIRVCP 736
           ++   L     +        +E L++          +  G  +      +L  L IR CP
Sbjct: 438 SLSGLLTDKVFEYIGTYAKKMEMLSVAFAGD-----SDLGMHHVLSGCDSLRKLEIRDCP 492

Query: 737 VIRD--LTWIREAPNLQFLSLVNCQ 759
                 L    +   ++ L + +C 
Sbjct: 493 FGDKALLANASKLETMRSLWMSSCS 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 = 42.6 bits (100), Expect = 5e-04
 Identities = 52/326 (15%), Positives = 100/326 (30%), Gaps = 51/326 (15%)

Query: 520 CPHLQTL-LVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ--LPAEMGALINLRCLNL 576
              L+ + L R  V +       +S    KVL LS     +   L A      NL+ L+L
Sbjct: 104 YTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDL 163

Query: 577 SNTSIEELPSEIM-----YLKNLKILLLDGMRH-------FHLIPARVFSSLLSLKVFSL 624
             + ++++    +        +L  L +  +           L       +L SLK+   
Sbjct: 164 RESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERL--VTRCPNLKSLKLNRA 221

Query: 625 FS-TELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT 683
               +L  L +  P        LE LG   Y   +     S L   + +   C  ++ L+
Sbjct: 222 VPLEKLATLLQRAPQ-------LEELGTGGYTAEVRPDVYSGL---SVALSGCKELRCLS 271

Query: 684 IMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNG-WTNFHNLHHLSIRVCPVIRD 740
              +     +         L TLN+   ++                L  L +        
Sbjct: 272 GFWDAVPAYLPAVYSVCSRLTTLNLSYATV--QSYDLVKLLCQCPKLQRLWVLDYIEDAG 329

Query: 741 LTWI-REAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICH 799
           L  +     +L+ L +   +        A + +          L+ +     P L+ + +
Sbjct: 330 LEVLASTCKDLRELRVFPSEPFVMEPNVALTEQG---------LVSV-SMGCPKLESVLY 379

Query: 800 GTMPFPSLQNVSV----TNCPNLREL 821
                  + N ++     N PN+   
Sbjct: 380 F---CRQMTNAALITIARNRPNMTRF 402

>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 = 46.5 bits (110), Expect = 3e-05
 Identities = 45/324 (13%), Positives = 97/324 (29%), Gaps = 37/324 (11%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ--LPAEMGALINLRCLNLS 577
             +L+         +I     + ++   + L       +    +P        +R L+L 
Sbjct: 242 AANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLL 301

Query: 578 NTSI--EELPSEIMYLKNLKILLL------DGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
              +  E+  + I    NL++L         G+       A+    L  L++      + 
Sbjct: 302 YALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVL----AQYCKQLKRLRIERGADEQG 357

Query: 630 IELHRMPPNQTTILD------ELECLGNQIYEISITLGSASALFK-----INFSWKLCSC 678
           +E      +Q  ++       ELE +   +Y   IT  S  ++        +F   L   
Sbjct: 358 MEDEEGLVSQRGLIALAQGCQELEYM--AVYVSDITNESLESIGTYLKNLCDFRLVLLDR 415

Query: 679 IKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNG-WTNFHNLHHLSIRVCPV 737
            +R+T +   +     L     L             D   +       N+  + +     
Sbjct: 416 EERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG- 474

Query: 738 IRDLTWIREA---PNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSL 794
             D   +  +   PNLQ L +  C            +          YL V    +  + 
Sbjct: 475 ESDEGLMEFSRGCPNLQKLEMRGCC-----FSERAIAAAVTKLPSLRYLWVQGYRASMTG 529

Query: 795 KRICHGTMPFPSLQNVSVTNCPNL 818
           + +     P+ +++ +     P +
Sbjct: 530 QDLMQMARPYWNIELIPSRRVPEV 553

>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 = 45.7 bits (108), Expect = 6e-05
 Identities = 28/273 (10%), Positives = 70/273 (25%), Gaps = 45/273 (16%)

Query: 572 RCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE 631
             + ++               NL+ L L G     +       +L+        +  + E
Sbjct: 53  EHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMF------NLIPENWGGYVTPWVTE 106

Query: 632 LHRMPPNQTTILDELECLGNQIYEIS---ITLGSASALFKINFSW-------------KL 675
           +          L  +      + ++    +    A  L  +                   
Sbjct: 107 ISNNLRQ----LKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTH 162

Query: 676 CSCIKRLTIMHNLDSHSID------LRNMMHLETLNIVECSLERVDPTFNG----WTNFH 725
           C  IK L +  +  S           ++   LE LN       ++  +         N  
Sbjct: 163 CRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKI--SPKDLETIARNCR 220

Query: 726 NLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMV 785
           +L  + +    ++  + + + A NL+     +      + E   +            L  
Sbjct: 221 SLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLG-LSY 279

Query: 786 IDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNL 818
           +  + +P L            ++ + +      
Sbjct: 280 MGPNEMPILFPFA------AQIRKLDLLYALLE 306

>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 = 45.3 bits (107), Expect = 8e-05
 Identities = 47/355 (13%), Positives = 110/355 (30%), Gaps = 52/355 (14%)

Query: 498 SWREDFRLSLWGSSIEYLPETPCPHLQTLLV----RFTVLEIFPHRFFESMGALKVLDLS 553
             RE   ++L  ++         P+L++L +    R  +  + P  +   +        +
Sbjct: 50  ETREHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISN 109

Query: 554 YNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHF-HLIPARV 612
               L  +        + R + +S+  ++ L        +L+ L LD    F       +
Sbjct: 110 NLRQLKSV--------HFRRMIVSDLDLDRLAK--ARADDLETLKLDKCSGFTTDGLLSI 159

Query: 613 FSSLLSLKVFSLFSTELIE-----LHRMPPNQTTILDELECLGNQIYEIS----ITLGSA 663
            +    +K   +  +   E     LH +  + T+ L+ L     +  +IS     T+   
Sbjct: 160 VTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTS-LEVLNFYMTEFAKISPKDLETIARN 218

Query: 664 S-ALFKINFSW----------KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLE 712
             +L  +              K  + ++        +   +  + M  +    +    L 
Sbjct: 219 CRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLS 278

Query: 713 RVDPTFNG--WTNFHNLHHLSIRVCPVIRD--LTWIREAPNLQFLSLVNCQALSEIIESA 768
            + P      +     +  L +    +  +   T I++ PNL+ L   N       I   
Sbjct: 279 YMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNV------IGDR 332

Query: 769 GSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPF--PSLQNVSVTNCPNLREL 821
           G   +A+       L  + ++     + +           L  ++   C  L  +
Sbjct: 333 GLEVLAQYCKQ---LKRLRIERGADEQGMEDEEGLVSQRGLIALA-QGCQELEYM 383

>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 = 44.5 bits (105), Expect = 1e-04
 Identities = 43/343 (12%), Positives = 104/343 (30%), Gaps = 53/343 (15%)

Query: 520 CPHLQTLLVRFTVLE----IFPHRFFESMGALKVLDLSY----NLDLTQLPAEMGALINL 571
           C  ++TLL+  +        + H   +   +L+VL+        +    L        +L
Sbjct: 163 CRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSL 222

Query: 572 RCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFS-----SLLSLKVFSLFS 626
             + + +  I EL        NL+      +     +P +  +      L  L +  +  
Sbjct: 223 VSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGP 282

Query: 627 TELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH 686
            E+  L          + +L+ L   +     T    + + K       C  ++ L   +
Sbjct: 283 NEMPILFPFAAQ----IRKLDLLYALL----ETEDHCTLIQK-------CPNLEVLETRN 327

Query: 687 NLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWI 744
            +    ++   +    L+ L I   + E+      G  +   L  L+             
Sbjct: 328 VIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALA------------- 374

Query: 745 REAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPF 804
           +    L+++++         I +     +           ++ LD    +       +P 
Sbjct: 375 QGCQELEYMAVYVSD-----ITNESLESIGTYLKNLCDFRLVLLDREERIT-----DLPL 424

Query: 805 PSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQW 847
            +     +  C  LR   F       + + +    ++   ++W
Sbjct: 425 DNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRW 467

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 43.9 bits (104), Expect = 7e-05
 Identities = 32/108 (29%), Positives = 49/108 (45%), Gaps = 4/108 (3%)

Query: 524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSIE 582
             L +    L+  P+  F+ + +L  L L  N  L  LP  +   L +L  LNLS   ++
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQLQ 89

Query: 583 ELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
            LP+ +   L  LK L L+  +    +P  VF  L  LK   L+  +L
Sbjct: 90  SLPNGVFDKLTQLKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQNQL 136

>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 = 42.4 bits (100), Expect = 1e-04
 Identities = 25/102 (24%), Positives = 38/102 (37%), Gaps = 8/102 (7%)

Query: 505 LSLWGSSIEYLPE--TPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
           L    S+   +        +L+ L +    L          +  LK L+LS N     L 
Sbjct: 31  LDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVS--NLPKLPKLKKLELSENRIFGGLD 88

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMYL---KNLKILLLDG 601
                L NL  LNLS   ++++ S +  L   + LK L L  
Sbjct: 89  MLAEKLPNLTHLNLSGNKLKDI-STLEPLKKLECLKSLDLFN 129

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 35/154 (22%), Positives = 64/154 (41%), Gaps = 13/154 (8%)

Query: 504 RLSLWGSSIEYLP-ETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP 562
           + +L   S+     +     +  ++   + ++       + +  ++ L L  N  L  + 
Sbjct: 23  KANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVRYLALGGN-KLHDIS 79

Query: 563 AEMGALINLRCLNLSNTSIEELPSEIMY-LKNLKILLLDGMRHFHLIPARVFSSLLSLKV 621
           A +  L NL  L L+   ++ LP+ +   L NLK L+L        +P  VF  L +L  
Sbjct: 80  A-LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-NQLQSLPDGVFDKLTNLTY 137

Query: 622 FSLFSTELIELHRMPP---NQTTILDELECLGNQ 652
            +L   +L  L   P    ++ T L EL+   NQ
Sbjct: 138 LNLAHNQLQSL---PKGVFDKLTNLTELDLSYNQ 168

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 34/109 (31%), Positives = 50/109 (45%), Gaps = 4/109 (3%)

Query: 523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLNLSNTSI 581
           L  L++    L+  P+  F+ +  LK L L  N  L  LP  +   L NL  LNL++  +
Sbjct: 87  LTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN-QLQSLPDGVFDKLTNLTYLNLAHNQL 145

Query: 582 EELPSEIM-YLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL 629
           + LP  +   L NL  L L   +    +P  VF  L  LK   L+  +L
Sbjct: 146 QSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQNQL 193

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 23/64 (35%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYL---KNLKIL 597
              +  LK L+LS N     L        NL  LNLS   I++L S I  L   +NLK L
Sbjct: 60  LPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDL-STIEPLKKLENLKSL 118

Query: 598 LLDG 601
            L  
Sbjct: 119 DLFN 122

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 40.8 bits (96), Expect = 8e-04
 Identities = 40/129 (31%), Positives = 52/129 (40%), Gaps = 10/129 (7%)

Query: 504 RLSLWGSSIEYLPETPCPH---LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ 560
            L L  + I  L          L+ L +    L   P   F+S+  L VLDL  N  LT 
Sbjct: 44  ILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN-QLTV 102

Query: 561 LPAEMGA---LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLL 617
           LP+       L++L+ L +    + ELP  I  L +L  L LD       IP   F  L 
Sbjct: 103 LPS--AVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLS 159

Query: 618 SLKVFSLFS 626
           SL    LF 
Sbjct: 160 SLTHAYLFG 168

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	863
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.9
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.9
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.89
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.89
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.89
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.89
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.88
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.88
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.88
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.88
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.88
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.87
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.87
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.87
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.87
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.87
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.87
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.87
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.87
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.87
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.87
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.86
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.86
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.86
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.85
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.85
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.85
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.85
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.84
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.83
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.83
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.82
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.82
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.81
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.81
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.81
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.81
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.8
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.79
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.78
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.77
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.76
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.76
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.76
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.76
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.75
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.75
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.75
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.75
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.75
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.75
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.74
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.72
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.71
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.71
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.71
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.68
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.68
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.68
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.67
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.67
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.66
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.66
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.66
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.65
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.64
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.63
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.63
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.61
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.58
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.58
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.57
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.57
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.57
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.57
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.56
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.56
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.56
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.55
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.54
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.54
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.52
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.51
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.51
2fna_A	357	Conserved hypothetical protein; structural genomic	99.51
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.51
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.5
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.5
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.49
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.48
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.47
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.46
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.46
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.45
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.45
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.44
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.44
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.43
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.43
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.42
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.41
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.41
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.39
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.39
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.37
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.37
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.36
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.35
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.34
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.34
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.34
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.34
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.33
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.31
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.31
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.25
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.24
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.24
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.2
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.18
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.17
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.17
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.16
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.16
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.15
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.13
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.12
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.1
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.09
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.09
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.06
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.02
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.01
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.99
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.92
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.92
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.82
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.8
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.74
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.69
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.6
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.57
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.57
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.49
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.49
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.48
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.32
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.29
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.25
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.24
3bos_A	242	Putative DNA replication factor; P-loop containing	98.24
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.22
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.15
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.14
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.12
3pvs_A	447	Replication-associated recombination protein A; ma	98.11
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.09
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.04
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.03
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.02
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.02
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.01
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.01
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.01
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.98
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.94
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.92
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.91
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.9
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.89
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.89
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.88
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.88
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.87
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.86
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.85
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.8
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.78
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.76
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.71
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.69
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.67
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.66
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.63
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.63
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.51
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.51
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.47
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.44
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.43
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.42
3co5_A	143	Putative two-component system transcriptional RES	97.38
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.34
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.33
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.33
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.32
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.32
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.3
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.29
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.27
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.23
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.18
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.13
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.07
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.05
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.01
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.77
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.75
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.52
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.51
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.51
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.5
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.49
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.48
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.36
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.35
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.31
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.3
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.26
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.23
3io5_A	333	Recombination and repair protein; storage dimer, i	96.14
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.13
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.06
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.03
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.02
2qgz_A	308	Helicase loader, putative primosome component; str	95.96
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.95
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.9
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.9
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.86
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.77
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.67
3ice_A	422	Transcription termination factor RHO; transcriptio	95.63
2xxa_A	433	Signal recognition particle protein; protein trans	95.56
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.44
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.42
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.37
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.33
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	95.3
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.24
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.19
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.08
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.06
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.99
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.96
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	94.96
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.9
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.87
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.83
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	94.83
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	94.81
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.79
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.75
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.63
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.57
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.57
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.56
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.56
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.54
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.49
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.44
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.44
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.41
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.41
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.37
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.32
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.3
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.29
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.29
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.28
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.23
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.19
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.13
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	94.13
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.11
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.05
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.04
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.04
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	94.03
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	93.99
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.99
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.97
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	93.94
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	93.93
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.92
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	93.91
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.91
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.87
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.86
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	93.85
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.85
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.81
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.8
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	93.8
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.75
1via_A	175	Shikimate kinase; structural genomics, transferase	93.74
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.73
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.72
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	93.71
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.7
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.69
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.68
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	93.68
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.63
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.61
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	93.61
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.6
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.58
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	93.55
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.55
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.54
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	93.48
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	93.46
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.42
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.41
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.41
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.4
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.39
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	93.38
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.36
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.32
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.32
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.28
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.28
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.26
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.21
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	93.19
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.17
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.17
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.16
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	93.15
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.15
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	93.15
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.08
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.06
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.05
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.05
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.02
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	92.99
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.99
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.97
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	92.92
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.85
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	92.84
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.83
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	92.82
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.81
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.73
2r6a_A	454	DNAB helicase, replicative helicase; replication,	92.72
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	92.71
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	92.63
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.62
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.58
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.58
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.55
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	92.53
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.53
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.51
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	92.5
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.47
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	92.46
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.42
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.3
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.26
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.23
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.23
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	92.22
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	92.13
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	92.12
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.11
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	92.1
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.1
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	92.09
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	92.04
3end_A	307	Light-independent protochlorophyllide reductase ir	91.87
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	91.86
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	91.85
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	91.84
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	91.83
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	91.83
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.82
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	91.77
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.71
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.69
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.62
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	91.58
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.56
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	91.48
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.45
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.44
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	91.39
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	91.34
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.32
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	91.31
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.29
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	91.28
1b0u_A	262	Histidine permease; ABC transporter, transport pro	91.26
1ji0_A	240	ABC transporter; ATP binding protein, structural g	91.19
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	91.18
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.15
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.15
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.14
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.12
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	91.11
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	91.1
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	91.09
1g6h_A	257	High-affinity branched-chain amino acid transport	91.07
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	91.07
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	91.06
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	91.01
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	90.97
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	90.96
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	90.89
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	90.83
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	90.82
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	90.79
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	90.79
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	90.7
2ghi_A	260	Transport protein; multidrug resistance protein, M	90.69
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	90.68
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	90.68
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	90.66
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	90.63
2og2_A	359	Putative signal recognition particle receptor; nuc	90.62
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	90.59
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	90.56
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	90.54
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	90.53
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	90.53
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	90.53
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	90.52
2wji_A	165	Ferrous iron transport protein B homolog; membrane	90.52
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	90.5
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	90.43
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	90.42
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	90.38
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	90.38
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	90.36
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.34
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.34
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	90.33
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	90.32
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	90.32
2ged_A	193	SR-beta, signal recognition particle receptor beta	90.3
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	90.23
2eyu_A	261	Twitching motility protein PILT; pilus retraction	90.18
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	90.14
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	90.11
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	90.09
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	90.08
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	90.04
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	89.99
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	89.89
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	89.83
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	89.67
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	89.62
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	89.6
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	89.58
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	89.56
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	89.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	89.55
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.43
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	89.4
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	89.4
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	89.4
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.39
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	89.27
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	89.17
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	89.13
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	89.08
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	88.97
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	88.95
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	88.95
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	88.94
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	88.93
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	88.9
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	88.89
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	88.81
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	88.78

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

Probab=100.00  E-value=1.3e-45  Score=424.60  Aligned_cols=301  Identities=15%  Similarity=0.135  Sum_probs=239.6

Q ss_pred             cchhhHHHHHHHhhccC---CceEEEEEcCCCChHHHHhhhhhh--ccccccCCCCEEEEEEeCCCC--CHHHHHHHHHH
Q 038405          156 VGADSKLDEVWGCIEDQ---SEQTIGLYGMGGVGKITLLKKPNN--KFLDVNHCFDLVIFVAVSKEG--NLEKIQEVIRK  228 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~  228 (863)
                      |||++++++|.++|...   ..++|+|+||||+||||||+++|+  +. .++.+|+.++||++++.+  +...++..|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            59999999999999643   689999999999999999999998  34 457899999999999985  89999999999


Q ss_pred             HcCCCcc--c---ccccChhhHHHHHHHHhccC-cEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh-----
Q 038405          229 KLDISDY--I---WNMKGEYDRAVEILISLRRK-KFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       229 ~l~~~~~--~---~~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~-----  297 (863)
                      +++....  .   ....+...+...+++.|+++ ||||||||||+..++ .+.     ..+||+||||||++.++     
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~~  283 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAASQ  283 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCCS
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcCC
Confidence            9986531  1   11224456788999999996 999999999997654 111     12799999999998886     


Q ss_pred             ------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhcCCC
Q 038405          298 ------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRNPS  371 (863)
Q Consensus       298 ------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~~~~  371 (863)
                            +++|+.+|||+||.+.++...  .++.+.+++++|+++|+|+||||+++|+.|+.+    .|+.+ +.+....+
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~----~w~~~-~~l~~~l~  356 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK----TFEKM-AQLNNKLE  356 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS----SHHHH-HHHHHHHH
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc----hHHHH-HHhHHHhh
Confidence                  788999999999999987653  246778899999999999999999999998763    25443 33332211


Q ss_pred             ccCCCCccccchhhcccCCCChhhHhHHhh-----------hhcCCCCCCccchHHHHHHHHhc--CCCCCccchhHHhh
Q 038405          372 RFAGMGNLVFPILRFSYDNLTDDTLKTCFL-----------YCSLFPEENNIRKDELIDLWIGE--GFLSDFRSITTARN  438 (863)
Q Consensus       372 ~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl-----------~~~~Fp~~~~i~~~~Li~~wiae--g~i~~~~~~~~~~~  438 (863)
                      ..  ..+.+.+++.+||+.||++ +|.||+           |||+||+++.|+    +++|+|+  ||+.........++
T Consensus       357 ~~--~~~~i~~~l~~Sy~~L~~~-lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~  429 (549)
T 2a5y_B          357 SR--GLVGVECITPYSYKSLAMA-LQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDE  429 (549)
T ss_dssp             HH--CSSTTCCCSSSSSSSHHHH-HHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHH
T ss_pred             cc--cHHHHHHHHhcccccccHH-HHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHH
Confidence            11  1246899999999999996 999999           999999999999    8999999  99986532344556


Q ss_pred             hHHHHHHHHHHhcccccCCC-CCCeEEechHHHHHHHHhhh
Q 038405          439 QGEYIIGSLKLACLLESGEY-SEDFVKMHDVVRDMALWLAS  478 (863)
Q Consensus       439 ~~~~~~~~L~~~~ll~~~~~-~~~~~~mHdlv~d~~~~i~~  478 (863)
                      .++ ++++|+++||++.... ....|+|||+||++|++++.
T Consensus       430 ~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~  469 (549)
T 2a5y_B          430 VAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVD  469 (549)
T ss_dssp             HHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSC
T ss_pred             HHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHH
Confidence            666 9999999999997642 35689999999999998875

>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=1.3e-38  Score=367.64  Aligned_cols=277  Identities=17%  Similarity=0.190  Sum_probs=222.5

Q ss_pred             cccchhhHHHHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCE-EEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          154 KTVGADSKLDEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDL-VIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..|||++++++|.++|.+ +..++|+|+||||+||||||+++|++. ++..+|+. ++|+++++.++...++..|.+.++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            359999999999999965 568999999999999999999999875 45678875 999999999998888888777542


Q ss_pred             CCc---c-cc-----cccChhhHHHHHHHHh---ccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh--
Q 038405          232 ISD---Y-IW-----NMKGEYDRAVEILISL---RRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC--  297 (863)
Q Consensus       232 ~~~---~-~~-----~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~--  297 (863)
                      ...   . ..     ...+.+.....+++.|   .+||+||||||||+...|..+    +   +||+||||||++.++  
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f----~---pGSRILVTTRd~~Va~~  280 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF----N---LSCKILLTTRFKQVTDF  280 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHH----H---SSCCEEEECSCSHHHHH
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhh----C---CCeEEEEeccChHHHHh
Confidence            110   0 00     0112344556677666   679999999999998877754    2   689999999999876  


Q ss_pred             --------cc------cCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCC-ChhhHHHH
Q 038405          298 --------VE------CLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRR-SPREWQYV  362 (863)
Q Consensus       298 --------l~------~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~-~~~~w~~~  362 (863)
                              ++      +|+.+|||+||....+..       ..++..+|   |+|+||||+++|+.|+.+. +...|+..
T Consensus       281 l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-------~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~  350 (1221)
T 1vt4_I          281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-------PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV  350 (1221)
T ss_dssp             HHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-------TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC
T ss_pred             cCCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-------HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC
Confidence                    55      899999999999985322       12334444   9999999999999999863 67788653


Q ss_pred             HHHHhcCCCccCCCCccccchhhcccCCCChhhH-hHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHH
Q 038405          363 IDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTL-KTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGE  441 (863)
Q Consensus       363 ~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~-k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~  441 (863)
                                   ..+.+..+|.+||+.||++ . |.||+|||+||+++.|+++.++.+|+++|           ++.+.
T Consensus       351 -------------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~I~~elLa~LW~aeG-----------eedAe  405 (1221)
T 1vt4_I          351 -------------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-----------KSDVM  405 (1221)
T ss_dssp             -------------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC-----------SHHHH
T ss_pred             -------------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC-----------HHHHH
Confidence                         1247999999999999997 8 99999999999999999999999998887           12477


Q ss_pred             HHHHHHHHhcccccCCCCCCeEEechHHHHHHH
Q 038405          442 YIIGSLKLACLLESGEYSEDFVKMHDVVRDMAL  474 (863)
Q Consensus       442 ~~~~~L~~~~ll~~~~~~~~~~~mHdlv~d~~~  474 (863)
                      .++++|+++||++... ...+|+|||++++++.
T Consensus       406 ~~L~eLvdRSLLq~d~-~~~rYrMHDLllELr~  437 (1221)
T 1vt4_I          406 VVVNKLHKYSLVEKQP-KESTISIPSIYLELKV  437 (1221)
T ss_dssp             HHHHHHHTSSSSSBCS-SSSEEBCCCHHHHHHH
T ss_pred             HHHHHHHhhCCEEEeC-CCCEEEehHHHHHHhc
Confidence            8899999999999853 2678999999999653

>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=3e-37  Score=394.35  Aligned_cols=303  Identities=21%  Similarity=0.275  Sum_probs=243.4

Q ss_pred             cCCccccchhhHHHHHHHhhc--cCCceEEEEEcCCCChHHHHhhhhhhccccccC-CCCEEEEEEeCCCCC--HHHHHH
Q 038405          150 MATEKTVGADSKLDEVWGCIE--DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNH-CFDLVIFVAVSKEGN--LEKIQE  224 (863)
Q Consensus       150 ~~~~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~F~~~~wv~~~~~~~--~~~~~~  224 (863)
                      .+.+.||||++++++|.++|.  +++.++|+|+||||+||||||+++|++...... .|+.++||++++..+  ....+.
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  200 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ  200 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHH
Confidence            344679999999999999995  467899999999999999999999998522244 457888999998654  344466


Q ss_pred             HHHHHcCCCccc--ccccChhhHHHHHHHHhccC--cEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh---
Q 038405          225 VIRKKLDISDYI--WNMKGEYDRAVEILISLRRK--KFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC---  297 (863)
Q Consensus       225 ~i~~~l~~~~~~--~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~---  297 (863)
                      .++..+......  ....+.++....++..+.++  |+||||||||+..+|..+       ++||+||||||++.++   
T Consensus       201 ~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~  273 (1249)
T 3sfz_A          201 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSV  273 (1249)
T ss_dssp             HHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTC
T ss_pred             HHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhh
Confidence            677776544311  12345677788888888877  999999999998777654       5789999999999876   


Q ss_pred             --------cc-cCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhc
Q 038405          298 --------VE-CLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQR  368 (863)
Q Consensus       298 --------l~-~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~  368 (863)
                              +. +|+.+||++||...++..    .+...+.+++|+++|+|+||||+++|++|+.+.  ..|+.+++.+..
T Consensus       274 ~~~~~~~~~~~~l~~~~a~~l~~~~~~~~----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~  347 (1249)
T 3sfz_A          274 MGPKHVVPVESGLGREKGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQN  347 (1249)
T ss_dssp             CSCBCCEECCSSCCHHHHHHHHHHHHTSC----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHS
T ss_pred             cCCceEEEecCCCCHHHHHHHHHHhhCCC----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhh
Confidence                    55 499999999999988543    234567899999999999999999999998743  579999999876


Q ss_pred             CCCcc-CC----CCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHH
Q 038405          369 NPSRF-AG----MGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYI  443 (863)
Q Consensus       369 ~~~~~-~~----~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~  443 (863)
                      ..... ..    ..+.+..++.+||+.||++ .|.||+|||+||+++.|+++.++.+|.++            ++.++.+
T Consensus       348 ~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~~~~~~l~~f~~~~~i~~~~~~~~~~~~------------~~~~~~~  414 (1249)
T 3sfz_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLE------------TEEVEDI  414 (1249)
T ss_dssp             CCCCCSSCTTCTTHHHHHHHHHHHHHTSCTT-THHHHHHGGGSCTTCCEEHHHHHHHHTCC------------HHHHHHH
T ss_pred             hhhhhcccccccchHHHHHHHHHHHHhCCHH-HHHHHHHhCccCCCCeeCHHHHHHHhCCC------------HHHHHHH
Confidence            64321 11    1135889999999999996 99999999999999999999999999553            3567788


Q ss_pred             HHHHHHhcccccCCC-CCCeEEechHHHHHHHHhhh
Q 038405          444 IGSLKLACLLESGEY-SEDFVKMHDVVRDMALWLAS  478 (863)
Q Consensus       444 ~~~L~~~~ll~~~~~-~~~~~~mHdlv~d~~~~i~~  478 (863)
                      +++|+++||++.... ...+|+||+++|++++..+.
T Consensus       415 l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~  450 (1249)
T 3sfz_A          415 LQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNR  450 (1249)
T ss_dssp             HHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTG
T ss_pred             HHHHHhccceEEecCCCceEEEecHHHHHHHHhhhh
Confidence            999999999987643 23469999999999998865

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

Probab=100.00  E-value=2.8e-34  Score=335.81  Aligned_cols=298  Identities=21%  Similarity=0.307  Sum_probs=232.3

Q ss_pred             CccccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhccccc-cCCC-CEEEEEEeCCCCCHHHHHHHH-
Q 038405          152 TEKTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKFLDV-NHCF-DLVIFVAVSKEGNLEKIQEVI-  226 (863)
Q Consensus       152 ~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F-~~~~wv~~~~~~~~~~~~~~i-  226 (863)
                      .+.||||+.++++|.++|..  ++.++|+|+||||+||||||++++++. .. ..+| +.++|++++.. +...+...+ 
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            35799999999999999963  568999999999999999999999875 33 5678 58999999876 333443333 


Q ss_pred             --HHHcCCCc--ccccccChhhHHHHHHHHhcc--CcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh---
Q 038405          227 --RKKLDISD--YIWNMKGEYDRAVEILISLRR--KKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC---  297 (863)
Q Consensus       227 --~~~l~~~~--~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~---  297 (863)
                        ...++...  ......+.+.....+...+.+  +++||||||||+...+..+       .+|++||||||++.++   
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~  273 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSV  273 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTC
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhc
Confidence              34444211  011234566777788888876  7999999999987655432       4689999999999865   


Q ss_pred             ---------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhc
Q 038405          298 ---------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQR  368 (863)
Q Consensus       298 ---------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~  368 (863)
                               +++|+.+||++||...++...    +...+.+.+|+++|+|+||||+.+|+.++..  ...|..+++.+..
T Consensus       274 ~~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~  347 (591)
T 1z6t_A          274 MGPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQN  347 (591)
T ss_dssp             CSCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHS
T ss_pred             CCCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHH
Confidence                     258999999999999987532    1224678999999999999999999999874  3479999998876


Q ss_pred             CCCc-c----CCCCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchhHHhhhHHHH
Q 038405          369 NPSR-F----AGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSITTARNQGEYI  443 (863)
Q Consensus       369 ~~~~-~----~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~~~~~~~~~~  443 (863)
                      .... .    ......+..++..||+.||++ .|.||++||+||+++.|+.+.+...|.++            .+.+..+
T Consensus       348 ~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~l~~la~f~~~~~i~~~~l~~l~~~~------------~~~~~~~  414 (591)
T 1z6t_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDME------------TEEVEDI  414 (591)
T ss_dssp             CCCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHHHHHGGGCCTTCCEEHHHHHHHHTCC------------HHHHHHH
T ss_pred             hHHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHHHHHccccCCCCccCHHHHHHHhccC------------HHHHHHH
Confidence            5321 1    111236888999999999996 99999999999999999999999999542            2346778


Q ss_pred             HHHHHHhcccccCCC-CCCeEEechHHHHHHHHhh
Q 038405          444 IGSLKLACLLESGEY-SEDFVKMHDVVRDMALWLA  477 (863)
Q Consensus       444 ~~~L~~~~ll~~~~~-~~~~~~mHdlv~d~~~~i~  477 (863)
                      +++|+++||++.... ...+|+||+++|++++...
T Consensus       415 l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          415 LQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             HHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            999999999986432 2357999999999998773

>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=99.91  E-value=1.6e-23  Score=227.81  Aligned_cols=286  Identities=17%  Similarity=0.207  Sum_probs=207.0

Q ss_pred             cccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceee
Q 038405          497 DSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLN  575 (863)
Q Consensus       497 ~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~  575 (863)
                      ..++.++++.+.++.+..++... +++|++|++++|.+..++.  +..+++|++|++++| .+..+| .++++++|++|+
T Consensus        41 ~~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n-~i~~~~-~~~~l~~L~~L~  116 (347)
T 4fmz_A           41 EELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTN-KITDIS-ALQNLTNLRELY  116 (347)
T ss_dssp             HHHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCG-GGTTCTTCSEEE
T ss_pred             hhcccccEEEEeCCccccchhhhhcCCccEEEccCCccccchh--hhcCCcCCEEEccCC-cccCch-HHcCCCcCCEEE
Confidence            34567889999999888887755 8999999999998888877  788999999999999 777776 488999999999


Q ss_pred             ccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccccee
Q 038405          576 LSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYE  655 (863)
Q Consensus       576 L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~  655 (863)
                      +++|.+..+|. +..+++|++|++++|.....++.  +..+++|++|++.+|.+.....  ......++.|....|.+  
T Consensus       117 l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~~~--~~~l~~L~~L~l~~n~l--  189 (347)
T 4fmz_A          117 LNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDVTP--IANLTDLYSLSLNYNQI--  189 (347)
T ss_dssp             CTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECTTSCC--
T ss_pred             CcCCcccCchh-hccCCceeEEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCchh--hccCCCCCEEEccCCcc--
Confidence            99999998887 88999999999999976666554  7899999999999877544322  11223333333333222  


Q ss_pred             eEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecC
Q 038405          656 ISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       656 l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~  735 (863)
                              ..+..    ...+++|+.|++++|.......+..+++|++|++++|.+..+++    +..+++|+.|++++|
T Consensus       190 --------~~~~~----~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n  253 (347)
T 4fmz_A          190 --------EDISP----LASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSP----LANLSQLTWLEIGTN  253 (347)
T ss_dssp             --------CCCGG----GGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG----GTTCTTCCEEECCSS
T ss_pred             --------ccccc----ccCCCccceeecccCCCCCCchhhcCCcCCEEEccCCccCCCcc----hhcCCCCCEEECCCC
Confidence                    22221    23456788888888877666557788888888888888776643    346788888888888


Q ss_pred             CCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccC
Q 038405          736 PVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNC  815 (863)
Q Consensus       736 ~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C  815 (863)
                      . +..++.+..+++|+.|++++|.. ..++          ....+++|+.|++++++--...+.....+++|+.|++++|
T Consensus       254 ~-l~~~~~~~~l~~L~~L~l~~n~l-~~~~----------~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n  321 (347)
T 4fmz_A          254 Q-ISDINAVKDLTKLKMLNVGSNQI-SDIS----------VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN  321 (347)
T ss_dssp             C-CCCCGGGTTCTTCCEEECCSSCC-CCCG----------GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSS
T ss_pred             c-cCCChhHhcCCCcCEEEccCCcc-CCCh----------hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCC
Confidence            4 44556778888888888888853 2221          3456788888888877432222233445788888888887


Q ss_pred             CCCCCCC
Q 038405          816 PNLRELP  822 (863)
Q Consensus       816 ~~L~~lp  822 (863)
                      + ++.++
T Consensus       322 ~-l~~~~  327 (347)
T 4fmz_A          322 H-ITDIR  327 (347)
T ss_dssp             S-CCCCG
T ss_pred             c-ccccc
Confidence            5 55554

>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=99.90  E-value=9.5e-24  Score=247.96  Aligned_cols=132  Identities=21%  Similarity=0.186  Sum_probs=113.5

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~  575 (863)
                      ..++.+++.+|.+..++...   +++|++|++++|.+..+++..|.++++|++|+|++| .+..+ |..|+++++|++|+
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n-~l~~~~p~~~~~l~~L~~L~  110 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLV  110 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CCCCCCTTSSTTCTTCCEEE
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC-cccccChhhcCCcccCCEEE
Confidence            67899999999998887643   899999999999999998877899999999999999 56655 88899999999999


Q ss_pred             ccCCCccccc-hhhhcccCccEEecCCCCCcc-ccchhhhcCCCCCceeeccCcchhhhc
Q 038405          576 LSNTSIEELP-SEIMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTELIELH  633 (863)
Q Consensus       576 L~~~~i~~lP-~~i~~L~~L~~L~l~~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~~~~  633 (863)
                      +++|.+..+| ..++++++|++|++++|.... .+|.. ++++++|++|++++|.+....
T Consensus       111 L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~Ls~n~l~~~~  169 (606)
T 3vq2_A          111 AVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY-FSNLTNLVHVDLSYNYIQTIT  169 (606)
T ss_dssp             CTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGG-GGTCTTCCEEECCSSCCCEEC
T ss_pred             ccCCccccccccccCCCCCCCEEeCCCCcccceechHh-HhhcCCCCEEEccCCcceecC
Confidence            9999999887 669999999999999998433 46776 899999999999998765543

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

Probab=99.90  E-value=2.6e-23  Score=229.85  Aligned_cols=287  Identities=16%  Similarity=0.159  Sum_probs=199.6

Q ss_pred             ccccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccce
Q 038405          498 SWREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRC  573 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~  573 (863)
                      ....++.+.+.++.+..+|...   +++|++|++++|.+..+++..|..+++|++|++++| .+..+ |..++++++|++
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~  121 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTV  121 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCE
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCC-CCCcCCHHHhcCCCCCCE
Confidence            3467888999999888888753   889999999999888888877889999999999999 56655 455789999999


Q ss_pred             eeccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc
Q 038405          574 LNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ  652 (863)
Q Consensus       574 L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~  652 (863)
                      |++++|.+..+|.. ++++++|++|++++|. +..+++..++++++|++|++++|.+....   ......++.|....|.
T Consensus       122 L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~---~~~l~~L~~L~l~~n~  197 (390)
T 3o6n_A          122 LVLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLTHVD---LSLIPSLFHANVSYNL  197 (390)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSSCCSBCC---GGGCTTCSEEECCSSC
T ss_pred             EECCCCccCcCCHHHhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCCcCCccc---cccccccceeeccccc
Confidence            99999999999887 4889999999999987 56666555889999999999988765432   1122333333333333


Q ss_pred             ceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          653 IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       653 L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      +..++                 ....|+.|++++|...... ...+++|+.|++++|.+.+.+    .+..+++|+.|++
T Consensus       198 l~~~~-----------------~~~~L~~L~l~~n~l~~~~-~~~~~~L~~L~l~~n~l~~~~----~l~~l~~L~~L~L  255 (390)
T 3o6n_A          198 LSTLA-----------------IPIAVEELDASHNSINVVR-GPVNVELTILKLQHNNLTDTA----WLLNYPGLVEVDL  255 (390)
T ss_dssp             CSEEE-----------------CCSSCSEEECCSSCCCEEE-CCCCSSCCEEECCSSCCCCCG----GGGGCTTCSEEEC
T ss_pred             ccccC-----------------CCCcceEEECCCCeeeecc-ccccccccEEECCCCCCcccH----HHcCCCCccEEEC
Confidence            33221                 2235777777776654432 233467777777777766543    2346777777777


Q ss_pred             ecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEe
Q 038405          733 RVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVS  811 (863)
Q Consensus       733 ~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~  811 (863)
                      ++|...... ..+..+++|+.|+|++|.. ..++         .....+++|+.|+++++ .++.++.....+++|+.|+
T Consensus       256 s~n~l~~~~~~~~~~l~~L~~L~L~~n~l-~~~~---------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~  324 (390)
T 3o6n_A          256 SYNELEKIMYHPFVKMQRLERLYISNNRL-VALN---------LYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLY  324 (390)
T ss_dssp             CSSCCCEEESGGGTTCSSCCEEECCSSCC-CEEE---------CSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEE
T ss_pred             CCCcCCCcChhHccccccCCEEECCCCcC-cccC---------cccCCCCCCCEEECCCC-cceecCccccccCcCCEEE
Confidence            777544332 3566777777777777753 2232         22345777777777776 4556655555567777777


Q ss_pred             eccCCCCCCCCC
Q 038405          812 VTNCPNLRELPF  823 (863)
Q Consensus       812 i~~C~~L~~lp~  823 (863)
                      +++|+ ++.+|+
T Consensus       325 L~~N~-i~~~~~  335 (390)
T 3o6n_A          325 LDHNS-IVTLKL  335 (390)
T ss_dssp             CCSSC-CCCCCC
T ss_pred             CCCCc-cceeCc
Confidence            77764 566654

>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=1.6e-22  Score=241.25  Aligned_cols=332  Identities=14%  Similarity=0.117  Sum_probs=245.8

Q ss_pred             ccccccceEEEeccCCccc------------------cCCCC----CCCccEEEeecccc-cccchhhhhcCCCccEEec
Q 038405          496 ADSWREDFRLSLWGSSIEY------------------LPETP----CPHLQTLLVRFTVL-EIFPHRFFESMGALKVLDL  552 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~------------------l~~~~----~~~Lr~L~l~~~~l-~~l~~~~~~~l~~L~~L~L  552 (863)
                      ...+.+++.|.+.+|.+..                  +|...    +++|++|++++|.+ ..+| ..+.++++|++|+|
T Consensus       444 l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP-~~l~~L~~L~~L~L  522 (876)
T 4ecn_A          444 IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLP-DFLYDLPELQSLNI  522 (876)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCC-GGGGGCSSCCEEEC
T ss_pred             HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccCh-HHHhCCCCCCEEEC
Confidence            4556789999999999987                  77763    78999999999965 4555 45899999999999


Q ss_pred             cCCcCcc--ccchhhhccc-------ccceeeccCCCccccch--hhhcccCccEEecCCCCCccccchhhhcCCCCCce
Q 038405          553 SYNLDLT--QLPAEMGALI-------NLRCLNLSNTSIEELPS--EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV  621 (863)
Q Consensus       553 s~~~~i~--~lp~~i~~L~-------~L~~L~L~~~~i~~lP~--~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~  621 (863)
                      ++|..+.  .+|..++++.       +|++|++++|.+..+|.  .++++++|++|++++|. +..+| . ++++++|++
T Consensus       523 s~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~-l~~lp-~-~~~L~~L~~  599 (876)
T 4ecn_A          523 ACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNK-VRHLE-A-FGTNVKLTD  599 (876)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSC-CCBCC-C-CCTTSEESE
T ss_pred             cCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCC-cccch-h-hcCCCcceE
Confidence            9994255  5899888877       99999999999999999  89999999999999998 55888 4 899999999


Q ss_pred             eeccCcchhhhccCCCCcccc-chhhhhhcccceeeEEeecCchh--hhhhhcccc----------------ccccccEE
Q 038405          622 FSLFSTELIELHRMPPNQTTI-LDELECLGNQIYEISITLGSASA--LFKINFSWK----------------LCSCIKRL  682 (863)
Q Consensus       622 L~l~~~~~~~~~~~~~~~~~~-l~~L~~l~n~L~~l~~~~~~~~~--l~~l~~~~~----------------~~~~L~~L  682 (863)
                      |++++|.+..++ ........ |+.|....|.+..++..+.....  +..+..+.+                .+.+|+.|
T Consensus       600 L~Ls~N~l~~lp-~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L  678 (876)
T 4ecn_A          600 LKLDYNQIEEIP-EDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTV  678 (876)
T ss_dssp             EECCSSCCSCCC-TTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEE
T ss_pred             EECcCCccccch-HHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEE
Confidence            999999877443 33335555 77777777777655533322211  222222211                22378999


Q ss_pred             EecccCCccccc--ccccCCcceeEeccCcccccCCCCCC-----CCCCCCCCEEEEecCCCCCCCcccc--cCCCcceE
Q 038405          683 TIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNG-----WTNFHNLHHLSIRVCPVIRDLTWIR--EAPNLQFL  753 (863)
Q Consensus       683 ~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~-----~~~l~~L~~L~L~~~~~~~~l~~l~--~l~~L~~L  753 (863)
                      ++++|.....+.  +..+++|+.|++++|.+..++.....     ..++++|+.|+|++|.....+..+.  .+++|+.|
T Consensus       679 ~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L  758 (876)
T 4ecn_A          679 TLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNM  758 (876)
T ss_dssp             ECCSSCCCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEE
T ss_pred             EccCCcCCccCHHHHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEE
Confidence            999988775443  45789999999999998876543211     1234499999999996654444565  89999999


Q ss_pred             eeccCcchhhhhcccCCccccccCccCcccceecccccc------cccccccCccCCCCccEEeeccCCCCCCCCCCCCC
Q 038405          754 SLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP------SLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDS  827 (863)
Q Consensus       754 ~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~------~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~  827 (863)
                      +|++|... .+|.         ....+++|+.|+|++++      -...++.....+++|+.|++++|. +..+|.... 
T Consensus       759 ~Ls~N~L~-~lp~---------~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~-L~~Ip~~l~-  826 (876)
T 4ecn_A          759 DVSYNCFS-SFPT---------QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSND-IRKVDEKLT-  826 (876)
T ss_dssp             ECCSSCCS-SCCC---------GGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSCCC-
T ss_pred             EeCCCCCC-ccch---------hhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCC-CCccCHhhc-
Confidence            99999753 3443         45578999999997733      344566666678999999999985 588997643 


Q ss_pred             CCCcceEEEchHhhhhcCc
Q 038405          828 AKNSLVSIRGSAEWWEQLQ  846 (863)
Q Consensus       828 ~~~~l~~i~~~~~~~~~l~  846 (863)
                        .+|..+.-+.+.+..+.
T Consensus       827 --~~L~~LdLs~N~l~~i~  843 (876)
T 4ecn_A          827 --PQLYILDIADNPNISID  843 (876)
T ss_dssp             --SSSCEEECCSCTTCEEE
T ss_pred             --CCCCEEECCCCCCCccC
Confidence              57777777666555444

>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=99.89  E-value=2.9e-22  Score=227.89  Aligned_cols=292  Identities=20%  Similarity=0.197  Sum_probs=180.6

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCcc
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIE  582 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~  582 (863)
                      .+...++.+..+|....+++++|++++|.+..+++..|..+++|++|+|++| .+..+ |..++++++|++|+|++|.+.
T Consensus        15 ~v~c~~~~l~~ip~~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~   93 (477)
T 2id5_A           15 AVLCHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSNRLK   93 (477)
T ss_dssp             EEECCSCCCSSCCSCCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEEeCCCCcCcCCCCCCCCCcEEECCCCccceECHhHccCCCCCCEEECCCC-ccCEeChhhhhCCccCCEEECCCCcCC
Confidence            4555566667777666677888888888777777666777888888888887 55544 667778888888888888887


Q ss_pred             ccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeec
Q 038405          583 ELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLG  661 (863)
Q Consensus       583 ~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~  661 (863)
                      .+|.. +.++++|++|++++|. +..++...+.++++|++|++++|.+..+.+..+.....|+.|....|.+..++    
T Consensus        94 ~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~----  168 (477)
T 2id5_A           94 LIPLGVFTGLSNLTKLDISENK-IVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIP----  168 (477)
T ss_dssp             SCCTTSSTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCC----
T ss_pred             ccCcccccCCCCCCEEECCCCc-cccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccC----
Confidence            77765 5778888888888776 44444444777888888888777665554443333344444433333332211    


Q ss_pred             CchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCc-ccccCCCCCCCCCCCCCCEEEEecCCCC
Q 038405          662 SASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECS-LERVDPTFNGWTNFHNLHHLSIRVCPVI  738 (863)
Q Consensus       662 ~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~-l~~~~~~~~~~~~l~~L~~L~L~~~~~~  738 (863)
                            .  .....+++|+.|++++|.......  +..+++|++|++++|. +..++..   .....+|+.|++++|...
T Consensus       169 ------~--~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~---~~~~~~L~~L~l~~n~l~  237 (477)
T 2id5_A          169 ------T--EALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPN---CLYGLNLTSLSITHCNLT  237 (477)
T ss_dssp             ------H--HHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTT---TTTTCCCSEEEEESSCCC
T ss_pred             ------h--hHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcc---cccCccccEEECcCCccc
Confidence                  0  112335577777777776654443  6677777788877776 3333322   123447777777777543


Q ss_pred             CCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccccccc-ccCccCCCCccEEeeccCC
Q 038405          739 RDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRI-CHGTMPFPSLQNVSVTNCP  816 (863)
Q Consensus       739 ~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l-~~~~~~~~~L~~L~i~~C~  816 (863)
                      ..+ ..+..+++|+.|+|++|.. ..++.        .....+++|+.|.|+++ ++..+ +.....+++|+.|++++| 
T Consensus       238 ~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~--------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-  306 (477)
T 2id5_A          238 AVPYLAVRHLVYLRFLNLSYNPI-STIEG--------SMLHELLRLQEIQLVGG-QLAVVEPYAFRGLNYLRVLNVSGN-  306 (477)
T ss_dssp             SCCHHHHTTCTTCCEEECCSSCC-CEECT--------TSCTTCTTCCEEECCSS-CCSEECTTTBTTCTTCCEEECCSS-
T ss_pred             ccCHHHhcCccccCeeECCCCcC-CccCh--------hhccccccCCEEECCCC-ccceECHHHhcCcccCCEEECCCC-
Confidence            322 2466777777777777763 22221        23455677777777664 33333 223345666777766664 


Q ss_pred             CCCCCCC
Q 038405          817 NLRELPF  823 (863)
Q Consensus       817 ~L~~lp~  823 (863)
                      +|+.+|.
T Consensus       307 ~l~~~~~  313 (477)
T 2id5_A          307 QLTTLEE  313 (477)
T ss_dssp             CCSCCCG
T ss_pred             cCceeCH
Confidence            4555543

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

Probab=99.89  E-value=1.4e-22  Score=224.07  Aligned_cols=267  Identities=16%  Similarity=0.220  Sum_probs=216.2

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccccchh-hhcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L  597 (863)
                      ++++++|.+.++.+..+|..++..+++|++|++++| .+..+| ..++++++|++|++++|.+..+|+. ++++++|++|
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCC-cccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEE
Confidence            789999999999999999999999999999999999 676665 4899999999999999999988654 8999999999


Q ss_pred             ecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccc
Q 038405          598 LLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCS  677 (863)
Q Consensus       598 ~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~  677 (863)
                      ++++|. +..+|..+++++++|++|++++|.+..+.+........|+.|....|.+..++               ...++
T Consensus       123 ~L~~n~-l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~---------------~~~l~  186 (390)
T 3o6n_A          123 VLERND-LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD---------------LSLIP  186 (390)
T ss_dssp             ECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC---------------GGGCT
T ss_pred             ECCCCc-cCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccc---------------ccccc
Confidence            999997 77899887799999999999999887665554445556666665555544321               23456


Q ss_pred             cccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeecc
Q 038405          678 CIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN  757 (863)
Q Consensus       678 ~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~  757 (863)
                      +|+.|++++|....   +...++|++|++++|.+..++..     .+++|+.|++++|. +..++++..+++|+.|+|++
T Consensus       187 ~L~~L~l~~n~l~~---~~~~~~L~~L~l~~n~l~~~~~~-----~~~~L~~L~l~~n~-l~~~~~l~~l~~L~~L~Ls~  257 (390)
T 3o6n_A          187 SLFHANVSYNLLST---LAIPIAVEELDASHNSINVVRGP-----VNVELTILKLQHNN-LTDTAWLLNYPGLVEVDLSY  257 (390)
T ss_dssp             TCSEEECCSSCCSE---EECCSSCSEEECCSSCCCEEECC-----CCSSCCEEECCSSC-CCCCGGGGGCTTCSEEECCS
T ss_pred             ccceeecccccccc---cCCCCcceEEECCCCeeeecccc-----ccccccEEECCCCC-CcccHHHcCCCCccEEECCC
Confidence            89999999886543   34567899999999998887543     36899999999995 45568899999999999999


Q ss_pred             CcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCC
Q 038405          758 CQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPF  823 (863)
Q Consensus       758 ~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~  823 (863)
                      |......+         .....+++|+.|+++++ +++.++.....+|+|+.|++++| +++.+|.
T Consensus       258 n~l~~~~~---------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~n-~l~~~~~  312 (390)
T 3o6n_A          258 NELEKIMY---------HPFVKMQRLERLYISNN-RLVALNLYGQPIPTLKVLDLSHN-HLLHVER  312 (390)
T ss_dssp             SCCCEEES---------GGGTTCSSCCEEECCSS-CCCEEECSSSCCTTCCEEECCSS-CCCCCGG
T ss_pred             CcCCCcCh---------hHccccccCCEEECCCC-cCcccCcccCCCCCCCEEECCCC-cceecCc
Confidence            97533322         24567899999999985 67777777778899999999987 4666653

>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=99.89  E-value=3e-22  Score=230.51  Aligned_cols=325  Identities=17%  Similarity=0.163  Sum_probs=172.3

Q ss_pred             ccceEEEeccCCccccCCC--C-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeec
Q 038405          500 REDFRLSLWGSSIEYLPET--P-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNL  576 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~--~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L  576 (863)
                      ..++++++.+|.+..++..  . +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|..  .+++|++|++
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~--~l~~L~~L~L   97 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KLVKISCH--PTVNLKHLDL   97 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSS-CCCEEECC--CCCCCSEEEC
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCC-ceeecCcc--ccCCccEEec
Confidence            4666777777766665532  1 667777777777666665555667777777777777 56666665  6677777777


Q ss_pred             cCCCccc--cchhhhcccCccEEecCCCCCccccchhhhcCCCCC--ceeeccCcch--hhhccCCCCc-----------
Q 038405          577 SNTSIEE--LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSL--KVFSLFSTEL--IELHRMPPNQ-----------  639 (863)
Q Consensus       577 ~~~~i~~--lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L--~~L~l~~~~~--~~~~~~~~~~-----------  639 (863)
                      ++|.+..  +|..++++++|++|++++|. +..   ..+..+++|  ++|++.+|.+  ....+.....           
T Consensus        98 ~~N~l~~~~~p~~~~~l~~L~~L~L~~n~-l~~---~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~l~~l~~~~l~l~l~  173 (520)
T 2z7x_B           98 SFNAFDALPICKEFGNMSQLKFLGLSTTH-LEK---SSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFP  173 (520)
T ss_dssp             CSSCCSSCCCCGGGGGCTTCCEEEEEESS-CCG---GGGGGGTTSCEEEEEEEECTTTTSSCCTTTTTTCCEEEEEEECC
T ss_pred             cCCccccccchhhhccCCcceEEEecCcc-cch---hhccccccceeeEEEeecccccccccccccccccccceEEEEec
Confidence            7776664  45667777777777777665 222   124555555  6666666554  1111111101           


Q ss_pred             ---------------cccchhhhhhcc-----------------------------------------------cceeeE
Q 038405          640 ---------------TTILDELECLGN-----------------------------------------------QIYEIS  657 (863)
Q Consensus       640 ---------------~~~l~~L~~l~n-----------------------------------------------~L~~l~  657 (863)
                                     ...++.|....|                                               .++.+.
T Consensus       174 ~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~~L~~L~  253 (520)
T 2z7x_B          174 TNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFS  253 (520)
T ss_dssp             SSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTSSCSEEE
T ss_pred             cCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhCcccEEE
Confidence                           111111111110                                               122222


Q ss_pred             EeecCchhhhhhhccc-----ccccc--------------------------ccEEEecccCCcccccccccCCcceeEe
Q 038405          658 ITLGSASALFKINFSW-----KLCSC--------------------------IKRLTIMHNLDSHSIDLRNMMHLETLNI  706 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~-----~~~~~--------------------------L~~L~l~~~~~~~~~~l~~~~~L~~L~l  706 (863)
                      +......  ..++...     ..++.                          |+.|++++|.......+..+++|++|++
T Consensus       254 l~~n~l~--~~~p~~~~~~~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L  331 (520)
T 2z7x_B          254 ISNVKLQ--GQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDF  331 (520)
T ss_dssp             EEEEEEE--SCCCCCCCCCCSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEEEC
T ss_pred             eeccccc--CccccchhhcccccCceeEeccccccceecchhhhhcccccCceeEEEcCCCccccccchhhCCcccEEEe
Confidence            1111000  0000000     11122                          3333333333222111255667777777


Q ss_pred             ccCcccccCCCCCCCCCCCCCCEEEEecCCCCC--CC-cccccCCCcceEeeccCcchhhhhccc-C----CccccccC-
Q 038405          707 VECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR--DL-TWIREAPNLQFLSLVNCQALSEIIESA-G----SSEVAESH-  777 (863)
Q Consensus       707 ~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~--~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~-~----~~~~~~~~-  777 (863)
                      ++|.+.+..+.  .+..+++|+.|++++|....  .+ ..++.+++|++|++++|.....+|... .    .+.+..+. 
T Consensus       332 s~n~l~~~~~~--~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N  409 (520)
T 2z7x_B          332 SNNLLTDTVFE--NCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSN  409 (520)
T ss_dssp             CSSCCCTTTTT--TCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSS
T ss_pred             ECCccChhhhh--hhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCC
Confidence            77776653222  34466777777777775432  11 235667777777777766443344320 0    00000111 


Q ss_pred             -------ccC-cccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEc
Q 038405          778 -------NYF-AYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRG  837 (863)
Q Consensus       778 -------~~~-~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~  837 (863)
                             ..+ ++|+.|+++++ +++.++.....+++|+.|++++| +++.+|........+++.+..
T Consensus       410 ~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l  475 (520)
T 2z7x_B          410 ILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWL  475 (520)
T ss_dssp             CCCGGGGGSCCTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcchhhhhcccCCEEECCCC-cccccchhhhcCCCCCEEECCCC-cCCccCHHHhccCCcccEEEC
Confidence                   122 57888888776 56677766667899999999997 688888763333456666543

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.89  E-value=2.1e-22  Score=217.29  Aligned_cols=290  Identities=16%  Similarity=0.127  Sum_probs=214.2

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNT  579 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~  579 (863)
                      ..+.+.+.++.+..+|....+++++|++++|.+..+++..|..+++|++|++++| .+..+ |..++++++|++|++++|
T Consensus        34 ~l~~l~~~~~~l~~ip~~~~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n  112 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNN-KISKIHEKAFSPLRKLQKLYISKN  112 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECGGGSTTCTTCCEEECCSS
T ss_pred             cCCEEECCCCCccccCCCCCCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCC-ccCccCHhHhhCcCCCCEEECCCC
Confidence            5678889999999999877899999999999999998877999999999999999 66655 788999999999999999


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhh--hccCCCCccccchhhhhhcccceeeE
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE--LHRMPPNQTTILDELECLGNQIYEIS  657 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~--~~~~~~~~~~~l~~L~~l~n~L~~l~  657 (863)
                      .+..+|..+.  ++|++|++++|. +..+|...+.++++|++|++++|.+..  ..+...... .++.|....|.+..++
T Consensus       113 ~l~~l~~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~  188 (332)
T 2ft3_A          113 HLVEIPPNLP--SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIP  188 (332)
T ss_dssp             CCCSCCSSCC--TTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCC
T ss_pred             cCCccCcccc--ccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccC
Confidence            9999998776  899999999998 777887779999999999999988753  223332222 5555655555554432


Q ss_pred             EeecCchhhhhhhccccccccccEEEecccCCcccc--cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecC
Q 038405          658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~  735 (863)
                      ..               ..++|+.|++++|......  .+..+++|++|++++|.+..+++.  .+..+++|+.|++++|
T Consensus       189 ~~---------------~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~L~~N  251 (332)
T 2ft3_A          189 KD---------------LPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENG--SLSFLPTLRELHLDNN  251 (332)
T ss_dssp             SS---------------SCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTT--GGGGCTTCCEEECCSS
T ss_pred             cc---------------ccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChh--HhhCCCCCCEEECCCC
Confidence            21               1257888999998776655  388889999999999998877553  4567899999999999


Q ss_pred             CCCCCCcccccCCCcceEeeccCcchhhhhccc-CCccccccCccCcccceecccccccc--cccccCccCCCCccEEee
Q 038405          736 PVIRDLTWIREAPNLQFLSLVNCQALSEIIESA-GSSEVAESHNYFAYLMVIDLDSLPSL--KRICHGTMPFPSLQNVSV  812 (863)
Q Consensus       736 ~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~-~~~~~~~~~~~~~~L~~L~L~~~~~L--~~l~~~~~~~~~L~~L~i  812 (863)
                      .....+..+..+++|+.|++++|.. ..++... ..   ......+++|+.|.+.+.+-.  ...+.....+++|+.+.+
T Consensus       252 ~l~~lp~~l~~l~~L~~L~l~~N~l-~~~~~~~~~~---~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l  327 (332)
T 2ft3_A          252 KLSRVPAGLPDLKLLQVVYLHTNNI-TKVGVNDFCP---VGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQF  327 (332)
T ss_dssp             CCCBCCTTGGGCTTCCEEECCSSCC-CBCCTTSSSC---SSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC
T ss_pred             cCeecChhhhcCccCCEEECCCCCC-CccChhHccc---cccccccccccceEeecCcccccccCcccccccchhhhhhc
Confidence            6654445688999999999999874 4433211 00   001123677888888887632  111222334556666666


Q ss_pred             ccCC
Q 038405          813 TNCP  816 (863)
Q Consensus       813 ~~C~  816 (863)
                      +++.
T Consensus       328 ~~n~  331 (332)
T 2ft3_A          328 GNYK  331 (332)
T ss_dssp             ----
T ss_pred             cccc
Confidence            6553

>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=99.89  E-value=8.6e-23  Score=238.35  Aligned_cols=293  Identities=17%  Similarity=0.185  Sum_probs=179.6

Q ss_pred             cccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhccccccee
Q 038405          499 WREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCL  574 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L  574 (863)
                      ...++.+.+.++.+..+|...   +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|. .++++++|++|
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L  128 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVL  128 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEE
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCC-cCCCCCHHHHcCCCCCCEE
Confidence            456788888888888888754   889999999999888888877889999999999999 5665554 56899999999


Q ss_pred             eccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccc
Q 038405          575 NLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI  653 (863)
Q Consensus       575 ~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L  653 (863)
                      +|++|.+..+|.. ++++++|++|++++|. +..+|+..++++++|++|++++|.+..+..   .....+..|....|.+
T Consensus       129 ~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~---~~l~~L~~L~l~~n~l  204 (597)
T 3oja_B          129 VLERNDLSSLPRGIFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLTHVDL---SLIPSLFHANVSYNLL  204 (597)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECTTSCCSBCCG---GGCTTCSEEECCSSCC
T ss_pred             EeeCCCCCCCCHHHhccCCCCCEEEeeCCc-CCCCChhhhhcCCcCcEEECcCCCCCCcCh---hhhhhhhhhhcccCcc
Confidence            9999999999877 4889999999999987 555665558899999999999887655421   1233444444444444


Q ss_pred             eeeEEeecCchhhhhhhccc--------cccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCC
Q 038405          654 YEISITLGSASALFKINFSW--------KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFH  725 (863)
Q Consensus       654 ~~l~~~~~~~~~l~~l~~~~--------~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~  725 (863)
                      ..++..    ..+..+..+.        ...++|+.|++++|.......+..+++|+.|++++|.+.++.+.  .+..++
T Consensus       205 ~~l~~~----~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~--~~~~l~  278 (597)
T 3oja_B          205 STLAIP----IAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYH--PFVKMQ  278 (597)
T ss_dssp             SEEECC----TTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESG--GGTTCS
T ss_pred             ccccCC----chhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCCCHH--HhcCcc
Confidence            332210    0111111100        11234555555555554443455555666666666555544332  234455


Q ss_pred             CCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCC
Q 038405          726 NLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFP  805 (863)
Q Consensus       726 ~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~  805 (863)
                      +|+.|+|++|.....+..+..+|+|+.|+|++|.. ..+|.         ....+++|+.|+|+++. +..++  ...++
T Consensus       279 ~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N~l-~~i~~---------~~~~l~~L~~L~L~~N~-l~~~~--~~~~~  345 (597)
T 3oja_B          279 RLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHL-LHVER---------NQPQFDRLENLYLDHNS-IVTLK--LSTHH  345 (597)
T ss_dssp             SCCEEECTTSCCCEEECSSSCCTTCCEEECCSSCC-CCCGG---------GHHHHTTCSEEECCSSC-CCCCC--CCTTC
T ss_pred             CCCEEECCCCCCCCCCcccccCCCCcEEECCCCCC-CccCc---------ccccCCCCCEEECCCCC-CCCcC--hhhcC
Confidence            56666665554332223334455666666655542 22321         22345555555555542 33332  23345


Q ss_pred             CccEEeeccC
Q 038405          806 SLQNVSVTNC  815 (863)
Q Consensus       806 ~L~~L~i~~C  815 (863)
                      +|+.|+++++
T Consensus       346 ~L~~L~l~~N  355 (597)
T 3oja_B          346 TLKNLTLSHN  355 (597)
T ss_dssp             CCSEEECCSS
T ss_pred             CCCEEEeeCC
Confidence            5555555544

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.89  E-value=9.5e-23  Score=228.83  Aligned_cols=290  Identities=18%  Similarity=0.152  Sum_probs=139.2

Q ss_pred             ccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          500 REDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      +.++.+++.++.+..+|... +++|++|++++|.+..+|   ++.+++|++|++++| .+..+|  ++++++|++|++++
T Consensus        42 ~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~---~~~l~~L~~L~Ls~N-~l~~~~--~~~l~~L~~L~L~~  115 (457)
T 3bz5_A           42 ATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSN-KLTNLD--VTPLTKLTYLNCDT  115 (457)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSS-CCSCCC--CTTCTTCCEEECCS
T ss_pred             CCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCC-CCceee--cCCCCcCCEEECCC
Confidence            34555555555555554322 555555555555555543   445555555555555 444443  55555555555555


Q ss_pred             CCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEE
Q 038405          579 TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI  658 (863)
Q Consensus       579 ~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~  658 (863)
                      |.++.+|  ++++++|++|++++|. +..+|   ++++++|++|++++|......  .......++.|....|.++.++ 
T Consensus       116 N~l~~l~--~~~l~~L~~L~l~~N~-l~~l~---l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L~ls~n~l~~l~-  186 (457)
T 3bz5_A          116 NKLTKLD--VSQNPLLTYLNCARNT-LTEID---VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITELD-  186 (457)
T ss_dssp             SCCSCCC--CTTCTTCCEEECTTSC-CSCCC---CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCCCC-
T ss_pred             CcCCeec--CCCCCcCCEEECCCCc-cceec---cccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCccceec-
Confidence            5555554  5555555555555554 33332   445555555555554211110  1112233333333333333221 


Q ss_pred             eecCchhhhhhhc--------cccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEE
Q 038405          659 TLGSASALFKINF--------SWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHL  730 (863)
Q Consensus       659 ~~~~~~~l~~l~~--------~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L  730 (863)
                       +..++.++.+..        ....+++|+.|++++|..... ++..+++|+.|++++|.++++++.     .+++|+.|
T Consensus       187 -l~~l~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~i-p~~~l~~L~~L~l~~N~l~~~~~~-----~l~~L~~L  259 (457)
T 3bz5_A          187 -VSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEI-DVTPLTQLTYFDCSVNPLTELDVS-----TLSKLTTL  259 (457)
T ss_dssp             -CTTCTTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCC-CCTTCTTCSEEECCSSCCSCCCCT-----TCTTCCEE
T ss_pred             -cccCCCCCEEECcCCcCCeeccccCCCCCEEECcCCccccc-CccccCCCCEEEeeCCcCCCcCHH-----HCCCCCEE
Confidence             111111111100        122345666677766665553 366666777777777766655332     23444333


Q ss_pred             ----------EEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccC
Q 038405          731 ----------SIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHG  800 (863)
Q Consensus       731 ----------~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~  800 (863)
                                ++++|.....+| .+.+++|+.|++++|..++.+|.            .+++|+.|+++++++|+.+...
T Consensus       260 ~l~~n~L~~L~l~~n~~~~~~~-~~~l~~L~~L~Ls~n~~l~~l~~------------~~~~L~~L~l~~~~~L~~L~L~  326 (457)
T 3bz5_A          260 HCIQTDLLEIDLTHNTQLIYFQ-AEGCRKIKELDVTHNTQLYLLDC------------QAAGITELDLSQNPKLVYLYLN  326 (457)
T ss_dssp             ECTTCCCSCCCCTTCTTCCEEE-CTTCTTCCCCCCTTCTTCCEEEC------------TTCCCSCCCCTTCTTCCEEECT
T ss_pred             eccCCCCCEEECCCCccCCccc-ccccccCCEEECCCCcccceecc------------CCCcceEechhhcccCCEEECC
Confidence                      333333222222 34567777777777766555442            2345555556666666655555


Q ss_pred             ccCCCCccEEeeccCCCCCCCCCCCCC
Q 038405          801 TMPFPSLQNVSVTNCPNLRELPFNFDS  827 (863)
Q Consensus       801 ~~~~~~L~~L~i~~C~~L~~lp~~~~~  827 (863)
                      .+.+..+   .+.+|++|+.|.++.|.
T Consensus       327 ~N~l~~l---~l~~l~~L~~L~l~~N~  350 (457)
T 3bz5_A          327 NTELTEL---DVSHNTKLKSLSCVNAH  350 (457)
T ss_dssp             TCCCSCC---CCTTCTTCSEEECCSSC
T ss_pred             CCccccc---ccccCCcCcEEECCCCC
Confidence            4444333   35555555555554443

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.88  E-value=2.1e-22  Score=236.48  Aligned_cols=335  Identities=14%  Similarity=0.122  Sum_probs=237.8

Q ss_pred             ccccccceEEEeccCCccc------------------cCCCC----CCCccEEEeecccccccchhhhhcCCCccEEecc
Q 038405          496 ADSWREDFRLSLWGSSIEY------------------LPETP----CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLS  553 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~------------------l~~~~----~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls  553 (863)
                      .....+++.+++.+|.+..                  +|...    +++|++|++++|.+....+..+.++++|++|+++
T Consensus       202 l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  281 (636)
T 4eco_A          202 VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVA  281 (636)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECT
T ss_pred             HhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECc
Confidence            4455678889999888887                  77653    6889999999986544333447889999999999


Q ss_pred             CCcCcc--ccchhhhcc------cccceeeccCCCccccch--hhhcccCccEEecCCCCCccccchhhhcCCCCCceee
Q 038405          554 YNLDLT--QLPAEMGAL------INLRCLNLSNTSIEELPS--EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS  623 (863)
Q Consensus       554 ~~~~i~--~lp~~i~~L------~~L~~L~L~~~~i~~lP~--~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~  623 (863)
                      +|..+.  .+|..++.+      ++|++|++++|.+..+|.  .++++++|++|++++|.....+| . ++++++|++|+
T Consensus       282 ~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~-~~~l~~L~~L~  359 (636)
T 4eco_A          282 CNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-A-FGSEIKLASLN  359 (636)
T ss_dssp             TCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-C-CEEEEEESEEE
T ss_pred             CCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-h-hCCCCCCCEEE
Confidence            984255  588888887      899999999998889998  89999999999999988444888 4 88889999999


Q ss_pred             ccCcchhhhccCCCCcccc-chhhhhhcccceeeEEeecCch--hhhhhhcc-----------cc-------ccccccEE
Q 038405          624 LFSTELIELHRMPPNQTTI-LDELECLGNQIYEISITLGSAS--ALFKINFS-----------WK-------LCSCIKRL  682 (863)
Q Consensus       624 l~~~~~~~~~~~~~~~~~~-l~~L~~l~n~L~~l~~~~~~~~--~l~~l~~~-----------~~-------~~~~L~~L  682 (863)
                      +++|.+..++ ........ |+.|....|.+..++..+....  .++.+..+           ..       .+.+|+.|
T Consensus       360 L~~N~l~~lp-~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L  438 (636)
T 4eco_A          360 LAYNQITEIP-ANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSI  438 (636)
T ss_dssp             CCSSEEEECC-TTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEE
T ss_pred             CCCCcccccc-HhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEE
Confidence            9888776432 22334455 7777766666665543332221  22222221           11       34578899


Q ss_pred             EecccCCccccc--ccccCCcceeEeccCcccccCCCCCC-----CCCCCCCCEEEEecCCCCCCCcccc--cCCCcceE
Q 038405          683 TIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNG-----WTNFHNLHHLSIRVCPVIRDLTWIR--EAPNLQFL  753 (863)
Q Consensus       683 ~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~-----~~~l~~L~~L~L~~~~~~~~l~~l~--~l~~L~~L  753 (863)
                      ++++|.....+.  +..+++|++|++++|.+..++.....     ...+++|+.|++++|.....+..+.  .+++|+.|
T Consensus       439 ~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L  518 (636)
T 4eco_A          439 NLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGI  518 (636)
T ss_dssp             ECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGGGSTTTCTTCCEE
T ss_pred             ECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccChhhhhccCCCcCEE
Confidence            999888775443  55688999999999998866543100     1123389999999997654344565  89999999


Q ss_pred             eeccCcchhhhhcccCCccccccCccCcccceeccccc------ccccccccCccCCCCccEEeeccCCCCCCCCCCCCC
Q 038405          754 SLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL------PSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDS  827 (863)
Q Consensus       754 ~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~------~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~  827 (863)
                      +|++|.... +|.         ....+++|+.|+|+++      .-...++.....+++|+.|++++|. ++.+|.... 
T Consensus       519 ~Ls~N~l~~-ip~---------~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~ip~~~~-  586 (636)
T 4eco_A          519 DLSYNSFSK-FPT---------QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSND-IRKVNEKIT-  586 (636)
T ss_dssp             ECCSSCCSS-CCC---------GGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSCCC-
T ss_pred             ECCCCCCCC-cCh---------hhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCc-CCccCHhHh-
Confidence            999987543 543         4456899999999643      3344566666678999999999975 588887543 


Q ss_pred             CCCcceEEEchHhhhhcCcc
Q 038405          828 AKNSLVSIRGSAEWWEQLQW  847 (863)
Q Consensus       828 ~~~~l~~i~~~~~~~~~l~w  847 (863)
                        .+|+.+.-+.+-+..+..
T Consensus       587 --~~L~~L~Ls~N~l~~~~~  604 (636)
T 4eco_A          587 --PNISVLDIKDNPNISIDL  604 (636)
T ss_dssp             --TTCCEEECCSCTTCEEEC
T ss_pred             --CcCCEEECcCCCCccccH
Confidence              677777776665555443

>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=99.88  E-value=5.3e-22  Score=230.41  Aligned_cols=137  Identities=15%  Similarity=0.136  Sum_probs=73.5

Q ss_pred             cccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC---cccccCCCcceEeeccCcchhhhhccc-C--
Q 038405          696 RNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL---TWIREAPNLQFLSLVNCQALSEIIESA-G--  769 (863)
Q Consensus       696 ~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l---~~l~~l~~L~~L~L~~~~~l~~i~~~~-~--  769 (863)
                      ..+++|++|++++|.+.+..+.  .+..+++|+.|++++|......   ..+..+++|+.|++++|.....++... .  
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l  427 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQ--GCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWA  427 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTT--TCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCC
T ss_pred             cCCCCceEEECCCCccccchhh--hhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCc
Confidence            3445555555555555443221  2334555555555555332211   124455555555555554332232210 0  


Q ss_pred             --Ccccc--------ccCccC-cccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEE
Q 038405          770 --SSEVA--------ESHNYF-AYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIR  836 (863)
Q Consensus       770 --~~~~~--------~~~~~~-~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~  836 (863)
                        .+.+.        .....+ ++|+.|+++++ +++.++.....+++|+.|+++++ +|+.+|........+++.+.
T Consensus       428 ~~L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~  503 (562)
T 3a79_B          428 ESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASN-QLKSVPDGVFDRLTSLQYIW  503 (562)
T ss_dssp             TTCCEEECCSSCCCGGGGSSCCTTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSS-CCCCCCTTSTTTCTTCCCEE
T ss_pred             ccCCEEECCCCCCCcchhhhhcCcCCEEECCCC-cCcccChhhcCCCCCCEEECCCC-CCCCCCHHHHhcCCCCCEEE
Confidence              00000        011223 68899999886 77788776668899999999986 68888876223335555553

>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=99.88  E-value=8e-22  Score=222.92  Aligned_cols=322  Identities=17%  Similarity=0.187  Sum_probs=198.9

Q ss_pred             ccceEEEeccCCccccCCC-C--CCCccEEEeeccccc-ccchhhhhcCCCccEEeccCCcCccc-cchhhhccccccee
Q 038405          500 REDFRLSLWGSSIEYLPET-P--CPHLQTLLVRFTVLE-IFPHRFFESMGALKVLDLSYNLDLTQ-LPAEMGALINLRCL  574 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~-~--~~~Lr~L~l~~~~l~-~l~~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~~L~~L~~L  574 (863)
                      +.++++++.+|.+..++.. .  +++|++|++++|.+. .+++..|..+++|++|+|++| .+.. .|..++++++|++|
T Consensus        30 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L  108 (455)
T 3v47_A           30 AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYN-QFLQLETGAFNGLANLEVL  108 (455)
T ss_dssp             TTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTC-TTCEECTTTTTTCTTCCEE
T ss_pred             CccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCC-ccCccChhhccCcccCCEE
Confidence            6799999999999887443 3  899999999999775 677777999999999999999 5554 48889999999999


Q ss_pred             eccCCCccc-cchh--hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCcc--ccchhhhhh
Q 038405          575 NLSNTSIEE-LPSE--IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQT--TILDELECL  649 (863)
Q Consensus       575 ~L~~~~i~~-lP~~--i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~--~~l~~L~~l  649 (863)
                      ++++|.+.. +|..  ++++++|++|++++|......|...++++++|++|++++|.+....+......  ..+..|...
T Consensus       109 ~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~  188 (455)
T 3v47_A          109 TLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLS  188 (455)
T ss_dssp             ECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECT
T ss_pred             eCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccccccc
Confidence            999999985 4554  89999999999999984444466658899999999999988765543322111  122222222


Q ss_pred             cc----------------------cceeeEEeecCchhh--hhhhccccccccccEEEecccCCcccc------------
Q 038405          650 GN----------------------QIYEISITLGSASAL--FKINFSWKLCSCIKRLTIMHNLDSHSI------------  693 (863)
Q Consensus       650 ~n----------------------~L~~l~~~~~~~~~l--~~l~~~~~~~~~L~~L~l~~~~~~~~~------------  693 (863)
                      .|                      .|+.+.++.......  ..+. ..-..++|+.|++++|......            
T Consensus       189 ~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~-~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  267 (455)
T 3v47_A          189 SITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFF-DAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNF  267 (455)
T ss_dssp             TCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHH-HHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTT
T ss_pred             cCcccccchhhccccccccccccceeeeEecCCCcccccchhhhh-ccccccceeeEeeccccccccccchhhhccCccc
Confidence            22                      222332222111110  0000 0001246667776665432211            


Q ss_pred             ccc--ccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCC
Q 038405          694 DLR--NMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGS  770 (863)
Q Consensus       694 ~l~--~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~  770 (863)
                      .+.  ..++|+.|++++|.+.+..+.  .+..+++|+.|++++|...... ..+..+++|++|+|++|.. ..++.    
T Consensus       268 ~~~~~~~~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l-~~~~~----  340 (455)
T 3v47_A          268 TFKGLEASGVKTCDLSKSKIFALLKS--VFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFL-GSIDS----  340 (455)
T ss_dssp             TTGGGTTSCCCEEECCSSCCCEECTT--TTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-CEECG----
T ss_pred             ccccccccCceEEEecCccccccchh--hcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCcc-CCcCh----
Confidence            011  124677777777766655333  3445667777777766544332 2456667777777776653 22211    


Q ss_pred             ccccccCccCcccceeccccccccccc-ccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEE
Q 038405          771 SEVAESHNYFAYLMVIDLDSLPSLKRI-CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIR  836 (863)
Q Consensus       771 ~~~~~~~~~~~~L~~L~L~~~~~L~~l-~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~  836 (863)
                          .....+++|+.|+|+++ .++.+ +.....+++|+.|++++| +++.+|........+|+.+.
T Consensus       341 ----~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~  401 (455)
T 3v47_A          341 ----RMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIW  401 (455)
T ss_dssp             ----GGGTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEE
T ss_pred             ----hHhcCcccCCEEECCCC-cccccChhhccccccccEEECCCC-ccccCCHhHhccCCcccEEE
Confidence                23345666777777665 33333 334445666777776664 46666554333334555543

>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=99.88  E-value=3.1e-22  Score=235.05  Aligned_cols=103  Identities=17%  Similarity=0.083  Sum_probs=52.6

Q ss_pred             cceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeecc
Q 038405          501 EDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLS  577 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~  577 (863)
                      .++.+++.+|.+..++...   +++|++|++++|.+..+++..|.++++|++|+|++|......|..++++++|++|+++
T Consensus        34 ~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  113 (606)
T 3t6q_A           34 STECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFI  113 (606)
T ss_dssp             TCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEECT
T ss_pred             cCcEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccccEeecc
Confidence            4555555555555543221   5555555555555555544445555555555555552222234455555555555555


Q ss_pred             CCCcccc-chhhhcccCccEEecCCCC
Q 038405          578 NTSIEEL-PSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       578 ~~~i~~l-P~~i~~L~~L~~L~l~~~~  603 (863)
                      +|.+..+ |..++++++|++|++++|.
T Consensus       114 ~n~i~~l~~~~~~~l~~L~~L~L~~n~  140 (606)
T 3t6q_A          114 QTGISSIDFIPLHNQKTLESLYLGSNH  140 (606)
T ss_dssp             TSCCSCGGGSCCTTCTTCCEEECCSSC
T ss_pred             ccCcccCCcchhccCCcccEEECCCCc
Confidence            5555554 3335555555555555544

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

Probab=99.88  E-value=4.4e-22  Score=232.01  Aligned_cols=134  Identities=16%  Similarity=0.176  Sum_probs=84.5

Q ss_pred             ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcchh-hhhcccCCcc
Q 038405          695 LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALS-EIIESAGSSE  772 (863)
Q Consensus       695 l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~-~i~~~~~~~~  772 (863)
                      +..+++|++|++++|.+....+.. .+..+++|+.|++++|.....+ ..+..+++|+.|++++|.... .+|       
T Consensus       392 ~~~l~~L~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p-------  463 (570)
T 2z63_A          392 FLGLEQLEHLDFQHSNLKQMSEFS-VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP-------  463 (570)
T ss_dssp             EETCTTCCEEECTTSEEESCTTSC-TTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEEC-------
T ss_pred             ccccCCCCEEEccCCccccccchh-hhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccch-------
Confidence            334455555555555544432211 3456677777777777554433 346677788888887776432 232       


Q ss_pred             ccccCccCcccceeccccccccccc-ccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEchHh
Q 038405          773 VAESHNYFAYLMVIDLDSLPSLKRI-CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAE  840 (863)
Q Consensus       773 ~~~~~~~~~~L~~L~L~~~~~L~~l-~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~~~~  840 (863)
                        .....+++|+.|+++++. ++.+ +.....+++|+.|++++| +++.+|........+++.+.-..+
T Consensus       464 --~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N  528 (570)
T 2z63_A          464 --DIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTN  528 (570)
T ss_dssp             --SCCTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             --hhhhcccCCCEEECCCCc-cccCChhhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCC
Confidence              345678899999999874 4444 445567899999999987 677777654444566776654433

>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=99.88  E-value=5.2e-22  Score=233.10  Aligned_cols=137  Identities=18%  Similarity=0.159  Sum_probs=88.2

Q ss_pred             ccccccceEEEeccCCccccCCC-C--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhccccc
Q 038405          496 ADSWREDFRLSLWGSSIEYLPET-P--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINL  571 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~-~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L  571 (863)
                      ......++.+.+.+|.+..++.. .  +++|++|++++|.+..+++..|..+++|++|++++| .+..+ |..++++++|
T Consensus        53 ~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~l~~~~~~~l~~L  131 (606)
T 3t6q_A           53 FSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTL  131 (606)
T ss_dssp             STTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEECTTS-CCSCGGGSCCTTCTTC
T ss_pred             hccCccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccccEeecccc-CcccCCcchhccCCcc
Confidence            34455677777777776665332 2  677777777777776666656777777777777777 55554 4556777777


Q ss_pred             ceeeccCCCccccc-hhhhcccCccEEecCCCCCccccchhhhcCCCCCc--eeeccCcchhhhcc
Q 038405          572 RCLNLSNTSIEELP-SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLK--VFSLFSTELIELHR  634 (863)
Q Consensus       572 ~~L~L~~~~i~~lP-~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~--~L~l~~~~~~~~~~  634 (863)
                      ++|++++|.+..++ +.+..+++|++|++++|. +..++...++.+++|+  +|++.+|.+....+
T Consensus       132 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~  196 (606)
T 3t6q_A          132 ESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEP  196 (606)
T ss_dssp             CEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC-CCEECHHHHHTTTTCCSEEEECTTCCCCEECT
T ss_pred             cEEECCCCcccccCcccccCCcccCEEEcccCc-ccccChhhhhhhcccceeEEecCCCccCccCh
Confidence            77777777777652 233347777777777776 4455444467777777  66777666554443

>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=99.88  E-value=3.7e-22  Score=225.63  Aligned_cols=322  Identities=13%  Similarity=0.074  Sum_probs=213.0

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCcc
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIE  582 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~  582 (863)
                      .+...++.++.+|. ..++|++|++++|.+..+++..|..+++|++|++++|.....+ |..++++++|++|++++|.+.
T Consensus        14 ~~~c~~~~l~~lp~-l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~   92 (455)
T 3v47_A           14 NAICINRGLHQVPE-LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFL   92 (455)
T ss_dssp             EEECCSSCCSSCCC-CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTC
T ss_pred             ccCcCCCCcccCCC-CCCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccC
Confidence            45666777888887 5689999999999999987777999999999999999443355 567999999999999999999


Q ss_pred             cc-chhhhcccCccEEecCCCCCccccc-hhhhcCCCCCceeeccCcchhhhccCC-CCccccchhhhhhcccceeeEEe
Q 038405          583 EL-PSEIMYLKNLKILLLDGMRHFHLIP-ARVFSSLLSLKVFSLFSTELIELHRMP-PNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       583 ~l-P~~i~~L~~L~~L~l~~~~~l~~lp-~~~i~~L~~L~~L~l~~~~~~~~~~~~-~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      .+ |..++++++|++|++++|.....+| ...++++++|++|++++|.+....+.. ......|+.|....|.+......
T Consensus        93 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  172 (455)
T 3v47_A           93 QLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEE  172 (455)
T ss_dssp             EECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTT
T ss_pred             ccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChh
Confidence            87 7789999999999999998433333 344889999999999999876654432 33445566665555544432110


Q ss_pred             -ecCc--hhhhhhhc-------------------cccccccccEEEecccCCccccc--c---cccCCcceeEeccCccc
Q 038405          660 -LGSA--SALFKINF-------------------SWKLCSCIKRLTIMHNLDSHSID--L---RNMMHLETLNIVECSLE  712 (863)
Q Consensus       660 -~~~~--~~l~~l~~-------------------~~~~~~~L~~L~l~~~~~~~~~~--l---~~~~~L~~L~l~~~~l~  712 (863)
                       +...  ..+..+..                   ....+++|+.|++++|......+  +   ...++|+.|++++|...
T Consensus       173 ~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~  252 (455)
T 3v47_A          173 DLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNM  252 (455)
T ss_dssp             TSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTT
T ss_pred             hhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeecccccc
Confidence             0000  00000000                   01122457777777665543322  1   12366777777766422


Q ss_pred             ccCCCC--------CCCC--CCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCc
Q 038405          713 RVDPTF--------NGWT--NFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFA  781 (863)
Q Consensus       713 ~~~~~~--------~~~~--~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~  781 (863)
                      ......        ..+.  ..++|+.|++++|.....+ ..++.+++|+.|+|++|......+         .....++
T Consensus       253 ~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~---------~~~~~l~  323 (455)
T 3v47_A          253 GSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDD---------NAFWGLT  323 (455)
T ss_dssp             SCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECT---------TTTTTCT
T ss_pred             ccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCcccccCh---------hHhcCcc
Confidence            211100        0111  2368999999999766554 458899999999999998543222         2456789


Q ss_pred             ccceecccccccccccc-cCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEc
Q 038405          782 YLMVIDLDSLPSLKRIC-HGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRG  837 (863)
Q Consensus       782 ~L~~L~L~~~~~L~~l~-~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~  837 (863)
                      +|+.|+++++ .+..+. .....+++|+.|++++| +++.++........+|+.+.-
T Consensus       324 ~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L  378 (455)
T 3v47_A          324 HLLKLNLSQN-FLGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELAL  378 (455)
T ss_dssp             TCCEEECCSS-CCCEECGGGGTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEEC
T ss_pred             cCCEEECCCC-ccCCcChhHhcCcccCCEEECCCC-cccccChhhccccccccEEEC
Confidence            9999999987 455553 34456889999998876 345443222223345555443

>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=99.88  E-value=1.4e-21  Score=210.67  Aligned_cols=268  Identities=19%  Similarity=0.182  Sum_probs=197.6

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNT  579 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~  579 (863)
                      .++.+.+.++.+..+|....+++++|++++|.+..++...|..+++|++|++++| .+..+ |..++++++|++|++++|
T Consensus        32 ~l~~l~~~~~~l~~lp~~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n  110 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKN  110 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSCCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSS
T ss_pred             CCeEEEecCCCccccCccCCCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCC-cCCeeCHHHhcCCCCCCEEECCCC
Confidence            5678888888899998877889999999999999999878999999999999999 66655 888999999999999999


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhh--hccCCCCccccchhhhhhcccceeeE
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE--LHRMPPNQTTILDELECLGNQIYEIS  657 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~--~~~~~~~~~~~l~~L~~l~n~L~~l~  657 (863)
                      .++.+|..+.  ++|++|++++|. +..++...+.++++|++|++++|.+..  ..+........++.|....|.+..++
T Consensus       111 ~l~~l~~~~~--~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  187 (330)
T 1xku_A          111 QLKELPEKMP--KTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIP  187 (330)
T ss_dssp             CCSBCCSSCC--TTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCC
T ss_pred             cCCccChhhc--ccccEEECCCCc-ccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCC
Confidence            9999998765  799999999997 677777779999999999999987643  22222222333333333333333221


Q ss_pred             EeecCchhhhhhhccccccccccEEEecccCCcccc--cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecC
Q 038405          658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~  735 (863)
                      .               ...++|+.|++++|......  .+..+++|++|++++|.+..+++.  .+..+++|+.|++++|
T Consensus       188 ~---------------~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~--~~~~l~~L~~L~L~~N  250 (330)
T 1xku_A          188 Q---------------GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNG--SLANTPHLRELHLNNN  250 (330)
T ss_dssp             S---------------SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTT--TGGGSTTCCEEECCSS
T ss_pred             c---------------cccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChh--hccCCCCCCEEECCCC
Confidence            1               11257888999888766553  378888999999999988777553  4557888999999998


Q ss_pred             CCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccc
Q 038405          736 PVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP  792 (863)
Q Consensus       736 ~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~  792 (863)
                      .....+..+..+++|++|++++|.. ..++...-.  .......++.|+.+.+.+.+
T Consensus       251 ~l~~lp~~l~~l~~L~~L~l~~N~i-~~~~~~~f~--~~~~~~~~~~l~~l~l~~N~  304 (330)
T 1xku_A          251 KLVKVPGGLADHKYIQVVYLHNNNI-SAIGSNDFC--PPGYNTKKASYSGVSLFSNP  304 (330)
T ss_dssp             CCSSCCTTTTTCSSCCEEECCSSCC-CCCCTTSSS--CSSCCTTSCCCSEEECCSSS
T ss_pred             cCccCChhhccCCCcCEEECCCCcC-CccChhhcC--CcccccccccccceEeecCc
Confidence            6654445688889999999988873 343321100  00111235677777777754

>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=9.2e-22  Score=222.66  Aligned_cols=287  Identities=15%  Similarity=0.203  Sum_probs=137.4

Q ss_pred             ccccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      ......++.+++.+|.+..++... +++|++|++++|.+..+++  +..+++|++|++++| .+..+|. ++++++|++|
T Consensus        64 ~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n-~l~~~~~-~~~l~~L~~L  139 (466)
T 1o6v_A           64 VEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNN-QITDIDP-LKNLTNLNRL  139 (466)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCSEE
T ss_pred             hhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccChh--hcCCCCCCEEECCCC-CCCCChH-HcCCCCCCEE
Confidence            344455566666666555555433 5666666666665555554  556666666666666 4555544 5566666666


Q ss_pred             eccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc--
Q 038405          575 NLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ--  652 (863)
Q Consensus       575 ~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~--  652 (863)
                      ++++|.+..+|. ++++++|++|+++++  +..++.  ++++++|++|++++|.+..+..  ......++.|....|.  
T Consensus       140 ~l~~n~l~~~~~-~~~l~~L~~L~l~~~--~~~~~~--~~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~  212 (466)
T 1o6v_A          140 ELSSNTISDISA-LSGLTSLQQLSFGNQ--VTDLKP--LANLTTLERLDISSNKVSDISV--LAKLTNLESLIATNNQIS  212 (466)
T ss_dssp             EEEEEEECCCGG-GTTCTTCSEEEEEES--CCCCGG--GTTCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECCSSCCC
T ss_pred             ECCCCccCCChh-hccCCcccEeecCCc--ccCchh--hccCCCCCEEECcCCcCCCChh--hccCCCCCEEEecCCccc
Confidence            666665555542 444444444444321  122221  4455555555555544322210  0011122222221111  


Q ss_pred             ----------ceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCC
Q 038405          653 ----------IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWT  722 (863)
Q Consensus       653 ----------L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~  722 (863)
                                |+.+.+.......+.    ....+++|+.|++++|......++..+++|++|++++|.+..+++    +.
T Consensus       213 ~~~~~~~l~~L~~L~l~~n~l~~~~----~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~----~~  284 (466)
T 1o6v_A          213 DITPLGILTNLDELSLNGNQLKDIG----TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP----LA  284 (466)
T ss_dssp             CCGGGGGCTTCCEEECCSSCCCCCG----GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG----GT
T ss_pred             ccccccccCCCCEEECCCCCcccch----hhhcCCCCCEEECCCCccccchhhhcCCCCCEEECCCCccCcccc----cc
Confidence                      112222111111111    112344566666666555444445555666666666665554432    23


Q ss_pred             CCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCcc
Q 038405          723 NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTM  802 (863)
Q Consensus       723 ~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~  802 (863)
                      .+++|+.|++++|.. ..++.+..+++|+.|+|++|..... +          ....+++|+.|+++++ .++.++ ...
T Consensus       285 ~l~~L~~L~L~~n~l-~~~~~~~~l~~L~~L~L~~n~l~~~-~----------~~~~l~~L~~L~l~~n-~l~~~~-~l~  350 (466)
T 1o6v_A          285 GLTALTNLELNENQL-EDISPISNLKNLTYLTLYFNNISDI-S----------PVSSLTKLQRLFFYNN-KVSDVS-SLA  350 (466)
T ss_dssp             TCTTCSEEECCSSCC-SCCGGGGGCTTCSEEECCSSCCSCC-G----------GGGGCTTCCEEECCSS-CCCCCG-GGT
T ss_pred             CCCccCeEEcCCCcc-cCchhhcCCCCCCEEECcCCcCCCc-h----------hhccCccCCEeECCCC-ccCCch-hhc
Confidence            456666666666643 3344456666666666666653221 1          1234566666666554 333332 223


Q ss_pred             CCCCccEEeeccC
Q 038405          803 PFPSLQNVSVTNC  815 (863)
Q Consensus       803 ~~~~L~~L~i~~C  815 (863)
                      .+++|+.|++++|
T Consensus       351 ~l~~L~~L~l~~n  363 (466)
T 1o6v_A          351 NLTNINWLSAGHN  363 (466)
T ss_dssp             TCTTCCEEECCSS
T ss_pred             cCCCCCEEeCCCC
Confidence            4555666665555

>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=99.87  E-value=5.8e-22  Score=231.32  Aligned_cols=294  Identities=16%  Similarity=0.216  Sum_probs=219.7

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccccchh-hhcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L  597 (863)
                      +++++.|.+.+|.+..+|+.+|..+++|++|+|++| .+..+| ..++++++|++|+|++|.+..+|+. ++++++|++|
T Consensus        50 l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  128 (597)
T 3oja_B           50 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  128 (597)
T ss_dssp             GCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCC-CCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEE
Confidence            789999999999999999999999999999999999 666665 4899999999999999999998765 6999999999


Q ss_pred             ecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccc----
Q 038405          598 LLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSW----  673 (863)
Q Consensus       598 ~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~----  673 (863)
                      ++++|. +..+|..+++++++|++|++++|.+..+.+..+....+|+.|....|.+..++  ...++.+..+..+.    
T Consensus       129 ~L~~n~-l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~--~~~l~~L~~L~l~~n~l~  205 (597)
T 3oja_B          129 VLERND-LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD--LSLIPSLFHANVSYNLLS  205 (597)
T ss_dssp             ECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC--GGGCTTCSEEECCSSCCS
T ss_pred             EeeCCC-CCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC--hhhhhhhhhhhcccCccc
Confidence            999997 77889887899999999999999988776666666777888877777766543  22222222222221    


Q ss_pred             --cccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCc
Q 038405          674 --KLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNL  750 (863)
Q Consensus       674 --~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L  750 (863)
                        ....+|+.|++++|....... ...++|+.|++++|.+.+.+    .+..+++|+.|+|++|.....+ ..++.+++|
T Consensus       206 ~l~~~~~L~~L~ls~n~l~~~~~-~~~~~L~~L~L~~n~l~~~~----~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  280 (597)
T 3oja_B          206 TLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTA----WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRL  280 (597)
T ss_dssp             EEECCTTCSEEECCSSCCCEEEC-SCCSCCCEEECCSSCCCCCG----GGGGCTTCSEEECCSSCCCEEESGGGTTCSSC
T ss_pred             cccCCchhheeeccCCccccccc-ccCCCCCEEECCCCCCCCCh----hhccCCCCCEEECCCCccCCCCHHHhcCccCC
Confidence              123456777777766544332 22357888888888776642    3456888888888888654443 457888888


Q ss_pred             ceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCC
Q 038405          751 QFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKN  830 (863)
Q Consensus       751 ~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~  830 (863)
                      +.|+|++|.. ..++         .....+++|+.|+|+++ .+..++.....+++|+.|++++|+ +..+|++.   ..
T Consensus       281 ~~L~Ls~N~l-~~l~---------~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~l~~L~~L~L~~N~-l~~~~~~~---~~  345 (597)
T 3oja_B          281 ERLYISNNRL-VALN---------LYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNS-IVTLKLST---HH  345 (597)
T ss_dssp             CEEECTTSCC-CEEE---------CSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSSC-CCCCCCCT---TC
T ss_pred             CEEECCCCCC-CCCC---------cccccCCCCcEEECCCC-CCCccCcccccCCCCCEEECCCCC-CCCcChhh---cC
Confidence            8888888863 3333         23456899999999986 566777666678999999999874 67777543   24


Q ss_pred             cceEEEc
Q 038405          831 SLVSIRG  837 (863)
Q Consensus       831 ~l~~i~~  837 (863)
                      +|..+..
T Consensus       346 ~L~~L~l  352 (597)
T 3oja_B          346 TLKNLTL  352 (597)
T ss_dssp             CCSEEEC
T ss_pred             CCCEEEe
Confidence            5555543

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

Probab=99.87  E-value=1.7e-22  Score=235.64  Aligned_cols=130  Identities=24%  Similarity=0.233  Sum_probs=101.4

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~  575 (863)
                      ..++.+++.+|.+..++...   +++|++|++++|.+..+++..|.++++|++|+|++| .+..+| ..|+++++|++|+
T Consensus        28 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  106 (570)
T 2z63_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLV  106 (570)
T ss_dssp             SSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEE
T ss_pred             ccccEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCC-cCCccCHhhhcCcccccccc
Confidence            46788888888888776532   888888888888888888777888888888888888 565554 6788888888888


Q ss_pred             ccCCCccccch-hhhcccCccEEecCCCCCcc-ccchhhhcCCCCCceeeccCcchhh
Q 038405          576 LSNTSIEELPS-EIMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTELIE  631 (863)
Q Consensus       576 L~~~~i~~lP~-~i~~L~~L~~L~l~~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~~  631 (863)
                      +++|.+..+|. .++++++|++|++++|.... .+|.. ++++++|++|++++|.+..
T Consensus       107 L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~l~~n~l~~  163 (570)
T 2z63_A          107 AVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKIQS  163 (570)
T ss_dssp             CTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECTTSCCCE
T ss_pred             ccccccccCCCccccccccccEEecCCCccceecChhh-hcccCCCCEEeCcCCccce
Confidence            88888888876 58888888888888887332 35666 7888888888888776543

>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=99.87  E-value=4.6e-22  Score=230.69  Aligned_cols=132  Identities=28%  Similarity=0.378  Sum_probs=103.5

Q ss_pred             ccceEEEeccCCccccCCC-C--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPET-P--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~-~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      ..++++++.+|.+..++.. .  +++|++|++++|.+..+++..|..+++|++|++++| .+..+|.. ++++++|++|+
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~  104 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLN  104 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCCSCCHHHHTTCTTCCEEE
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC-ccCccCHHHhccCCCCcEEE
Confidence            5788888888888876543 2  888888888888888888777888888888888888 66666554 88888888888


Q ss_pred             ccCCCccc--cchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhh
Q 038405          576 LSNTSIEE--LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       576 L~~~~i~~--lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      +++|.+..  .|..++++++|++|++++|..+..+|...++++++|++|++++|.+...
T Consensus       105 Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~  163 (549)
T 2z81_A          105 LMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNY  163 (549)
T ss_dssp             CTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE
T ss_pred             CCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCccccc
Confidence            88888874  4667888888888888888766777755578888888888887766543

>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=99.87  E-value=9.1e-22  Score=223.77  Aligned_cols=290  Identities=23%  Similarity=0.230  Sum_probs=193.9

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      ..++.+++.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. ++++++|++|+
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  110 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLD  110 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCSCCTTSSTTCTTCCEEE
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC-cCCccCcccccCCCCCCEEE
Confidence            47889999999998886543   899999999999999887777999999999999999 78888764 68999999999


Q ss_pred             ccCCCcccc-chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          576 LSNTSIEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       576 L~~~~i~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      |++|.+..+ |..+.++++|++|++++|. +..++...+.++++|++|++++|.+..+..........|+.|....|.+.
T Consensus       111 Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~  189 (477)
T 2id5_A          111 ISENKIVILLDYMFQDLYNLKSLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNIN  189 (477)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEEECCTT-CCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCC
T ss_pred             CCCCccccCChhHccccccCCEEECCCCc-cceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCc
Confidence            999999877 5568999999999999997 55565555899999999999998765443221222333333333333332


Q ss_pred             eeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       655 ~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      .++            ......+++|+.|++++|......+  .....+|++|++++|.++.++..  .+..+++|+.|+|
T Consensus       190 ~~~------------~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~L  255 (477)
T 2id5_A          190 AIR------------DYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYL--AVRHLVYLRFLNL  255 (477)
T ss_dssp             EEC------------TTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHH--HHTTCTTCCEEEC
T ss_pred             EeC------------hhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHH--HhcCccccCeeEC
Confidence            221            1122345667777777765544332  22334677777777776655422  2345677777777


Q ss_pred             ecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccC-ccCCCCccEE
Q 038405          733 RVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHG-TMPFPSLQNV  810 (863)
Q Consensus       733 ~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~-~~~~~~L~~L  810 (863)
                      ++|...... ..+..+++|+.|+|++|......+         .....+++|+.|+|+++ +++.++.. ...+++|+.|
T Consensus       256 s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~---------~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L  325 (477)
T 2id5_A          256 SYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEP---------YAFRGLNYLRVLNVSGN-QLTTLEESVFHSVGNLETL  325 (477)
T ss_dssp             CSSCCCEECTTSCTTCTTCCEEECCSSCCSEECT---------TTBTTCTTCCEEECCSS-CCSCCCGGGBSCGGGCCEE
T ss_pred             CCCcCCccChhhccccccCCEEECCCCccceECH---------HHhcCcccCCEEECCCC-cCceeCHhHcCCCcccCEE
Confidence            777543322 235667777777777765332211         23445667777777664 44444432 2345566666


Q ss_pred             eeccC
Q 038405          811 SVTNC  815 (863)
Q Consensus       811 ~i~~C  815 (863)
                      ++.++
T Consensus       326 ~l~~N  330 (477)
T 2id5_A          326 ILDSN  330 (477)
T ss_dssp             ECCSS
T ss_pred             EccCC
Confidence            66553

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

Probab=99.87  E-value=1.7e-22  Score=240.96  Aligned_cols=289  Identities=13%  Similarity=0.158  Sum_probs=184.8

Q ss_pred             CCccccCCCC--CCCccEEEeecccccc------------------cchhh-hhcCCCccEEeccCCcCccccchhhhcc
Q 038405          510 SSIEYLPETP--CPHLQTLLVRFTVLEI------------------FPHRF-FESMGALKVLDLSYNLDLTQLPAEMGAL  568 (863)
Q Consensus       510 ~~~~~l~~~~--~~~Lr~L~l~~~~l~~------------------l~~~~-~~~l~~L~~L~Ls~~~~i~~lp~~i~~L  568 (863)
                      |.+..+|...  +++|++|++++|.+..                  +|..+ |..+++|++|+|++|.....+|..++++
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            5566677765  9999999999999888                  88773 3499999999999997788999999999


Q ss_pred             cccceeeccCCC-ccc--cchhhhccc-------CccEEecCCCCCccccch-hhhcCCCCCceeeccCcchhhhccCCC
Q 038405          569 INLRCLNLSNTS-IEE--LPSEIMYLK-------NLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIELHRMPP  637 (863)
Q Consensus       569 ~~L~~L~L~~~~-i~~--lP~~i~~L~-------~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~~~~~~~  637 (863)
                      ++|++|+|++|. ++.  +|..+++++       +|++|++++|. +..+|. +.++++++|++|++++|.+..++  ..
T Consensus       515 ~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp--~~  591 (876)
T 4ecn_A          515 PELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHNKVRHLE--AF  591 (876)
T ss_dssp             SSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSC-CCBCCCHHHHTTCTTCCEEECTTSCCCBCC--CC
T ss_pred             CCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCc-CCccCChhhhhcCCCCCEEECCCCCcccch--hh
Confidence            999999999997 884  999888877       99999999998 558998 23999999999999999877443  44


Q ss_pred             CccccchhhhhhcccceeeEEeecCchh-hhhhhcccc----------cc--ccccEEEecccCCccccc-c----c--c
Q 038405          638 NQTTILDELECLGNQIYEISITLGSASA-LFKINFSWK----------LC--SCIKRLTIMHNLDSHSID-L----R--N  697 (863)
Q Consensus       638 ~~~~~l~~L~~l~n~L~~l~~~~~~~~~-l~~l~~~~~----------~~--~~L~~L~l~~~~~~~~~~-l----~--~  697 (863)
                      .....|+.|....|.+..++..+..+.. ++.+..+.+          ..  ++|+.|++++|......+ +    .  .
T Consensus       592 ~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~  671 (876)
T 4ecn_A          592 GTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYK  671 (876)
T ss_dssp             CTTSEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCC
T ss_pred             cCCCcceEEECcCCccccchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhcccc
Confidence            4566677777666666544433332222 222222111          11  125555555554432211 1    1  2


Q ss_pred             cCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCccc--------ccCCCcceEeeccCcchhhhhcccC
Q 038405          698 MMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWI--------REAPNLQFLSLVNCQALSEIIESAG  769 (863)
Q Consensus       698 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l--------~~l~~L~~L~L~~~~~l~~i~~~~~  769 (863)
                      +++|+.|++++|.+..++..  .+..+++|+.|+|++|.....++.+        .++++|+.|+|++|.. ..+|.   
T Consensus       672 ~~~L~~L~Ls~N~L~~lp~~--~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L-~~lp~---  745 (876)
T 4ecn_A          672 GINASTVTLSYNEIQKFPTE--LFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKL-TSLSD---  745 (876)
T ss_dssp             CCCEEEEECCSSCCCSCCHH--HHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCC-CCCCG---
T ss_pred             CCCcCEEEccCCcCCccCHH--HHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCC-ccchH---
Confidence            23555555555555443221  1123455666666665433222111        1223566666666642 23332   


Q ss_pred             CccccccC--ccCcccceecccccccccccccCccCCCCccEEeecc
Q 038405          770 SSEVAESH--NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTN  814 (863)
Q Consensus       770 ~~~~~~~~--~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~  814 (863)
                            ..  ..+++|+.|+|+++ +++.++.....+++|+.|++++
T Consensus       746 ------~l~~~~l~~L~~L~Ls~N-~L~~lp~~l~~L~~L~~L~Ls~  785 (876)
T 4ecn_A          746 ------DFRATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRH  785 (876)
T ss_dssp             ------GGSTTTCTTCCEEECCSS-CCSSCCCGGGGCTTCCEEECCC
T ss_pred             ------HhhhccCCCcCEEEeCCC-CCCccchhhhcCCCCCEEECCC
Confidence                  22  25677777777764 4455655555677777777754

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

Probab=99.87  E-value=1.8e-21  Score=236.41  Aligned_cols=259  Identities=17%  Similarity=0.166  Sum_probs=170.9

Q ss_pred             ccccceEEEeccCCccccCCCC---CCCccEEEeecc-cccccchhhhhcCCCccEEeccCCcCccc-cchhhhcccccc
Q 038405          498 SWREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFT-VLEIFPHRFFESMGALKVLDLSYNLDLTQ-LPAEMGALINLR  572 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~~L~~L~  572 (863)
                      ....+++|.+++|.+..++...   +++|++|++++| .+..+++..|.++++|++|+|++| .+.. .|..|+++++|+
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 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS-KIYFLHPDAFQGLFHLF  100 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC-CCCEECTTSSCSCSSCC
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC-cCcccCHhHccCCcccC
Confidence            4568999999999998875433   999999999999 566776777999999999999999 5554 488999999999


Q ss_pred             eeeccCCCccc-cchh--hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCcc--ccchhhh
Q 038405          573 CLNLSNTSIEE-LPSE--IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQT--TILDELE  647 (863)
Q Consensus       573 ~L~L~~~~i~~-lP~~--i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~--~~l~~L~  647 (863)
                      +|+|++|.+.. +|..  ++++++|++|++++|......|...+++|++|++|++++|.+....+......  ..++.|.
T Consensus       101 ~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~  180 (844)
T 3j0a_A          101 ELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFS  180 (844)
T ss_dssp             CEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCE
T ss_pred             EeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEE
Confidence            99999999886 5665  89999999999999984444343448999999999999987643322111111  1222222


Q ss_pred             hhccc--------------------ceeeEEeecCch------------------------------------hhhhhhc
Q 038405          648 CLGNQ--------------------IYEISITLGSAS------------------------------------ALFKINF  671 (863)
Q Consensus       648 ~l~n~--------------------L~~l~~~~~~~~------------------------------------~l~~l~~  671 (863)
                      ...|.                    |+.+.++.....                                    ....-..
T Consensus       181 L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f  260 (844)
T 3j0a_A          181 LAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTF  260 (844)
T ss_dssp             ECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTT
T ss_pred             CCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhh
Confidence            22211                    112211111000                                    0000000


Q ss_pred             cccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCC
Q 038405          672 SWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAP  748 (863)
Q Consensus       672 ~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~  748 (863)
                      .....++|+.|++++|......+  +..+++|+.|++++|.+..+.+.  .+..+++|+.|+|++|...... ..+..++
T Consensus       261 ~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~--~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  338 (844)
T 3j0a_A          261 AGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADE--AFYGLDNLQVLNLSYNLLGELYSSNFYGLP  338 (844)
T ss_dssp             TTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTT--TTTTCSSCCEEEEESCCCSCCCSCSCSSCT
T ss_pred             hccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChH--HhcCCCCCCEEECCCCCCCccCHHHhcCCC
Confidence            00012467777777776554432  66777777777777777666443  3456777777777777543332 3466777


Q ss_pred             CcceEeeccCc
Q 038405          749 NLQFLSLVNCQ  759 (863)
Q Consensus       749 ~L~~L~L~~~~  759 (863)
                      +|+.|++++|.
T Consensus       339 ~L~~L~L~~N~  349 (844)
T 3j0a_A          339 KVAYIDLQKNH  349 (844)
T ss_dssp             TCCEEECCSCC
T ss_pred             CCCEEECCCCC
Confidence            77777777764

>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=99.87  E-value=7.2e-22  Score=231.91  Aligned_cols=121  Identities=24%  Similarity=0.265  Sum_probs=85.0

Q ss_pred             ccccccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhccccc
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINL  571 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L  571 (863)
                      ......++.+++.+|.+..++...   +++|++|++++|.+..+++..|+++++|++|++++| .+..+| ..++++++|
T Consensus        52 ~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L  130 (606)
T 3vq2_A           52 FSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITL  130 (606)
T ss_dssp             TTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTS-CCCCSSSSCCTTCTTC
T ss_pred             ccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEccCC-ccccccccccCCCCCC
Confidence            345567778888888777764432   778888888888777776666778888888888888 555554 567788888


Q ss_pred             ceeeccCCCcc--ccchhhhcccCccEEecCCCCCccccchhhhcCCCC
Q 038405          572 RCLNLSNTSIE--ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS  618 (863)
Q Consensus       572 ~~L~L~~~~i~--~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~  618 (863)
                      ++|++++|.+.  .+|..++++++|++|++++|. +..++...++.+++
T Consensus       131 ~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~  178 (606)
T 3vq2_A          131 KKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNY-IQTITVNDLQFLRE  178 (606)
T ss_dssp             CEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSC-CCEECTTTTHHHHH
T ss_pred             CEEeCCCCcccceechHhHhhcCCCCEEEccCCc-ceecChhhhhhhhc
Confidence            88888888776  467778888888888888776 44443332444443

>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=99.87  E-value=3e-22  Score=240.73  Aligned_cols=266  Identities=21%  Similarity=0.161  Sum_probs=174.8

Q ss_pred             ccccceEEEeccCCcc-ccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccc
Q 038405          498 SWREDFRLSLWGSSIE-YLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLR  572 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~-~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~  572 (863)
                      ....++.+.+.+|.+. .+|...   +++|++|++++|.+....+..|+.+++|++|++++|.....+|.. ++++++|+
T Consensus       267 ~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~  346 (768)
T 3rgz_A          267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLK  346 (768)
T ss_dssp             CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCC
T ss_pred             ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCC
Confidence            4456777777777766 455543   578888888888776554455778888888888888333377765 77888888


Q ss_pred             eeeccCCCcc-ccchhhhccc-CccEEecCCCCCccccchhhhcC--CCCCceeeccCcchhhhccCCCCccccchhhhh
Q 038405          573 CLNLSNTSIE-ELPSEIMYLK-NLKILLLDGMRHFHLIPARVFSS--LLSLKVFSLFSTELIELHRMPPNQTTILDELEC  648 (863)
Q Consensus       573 ~L~L~~~~i~-~lP~~i~~L~-~L~~L~l~~~~~l~~lp~~~i~~--L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~  648 (863)
                      +|++++|.+. .+|..+.+++ +|++|++++|.....+|.. +..  +++|++|++.+|.+.+..+........|+.|..
T Consensus       347 ~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~-~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  425 (768)
T 3rgz_A          347 VLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN-LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHL  425 (768)
T ss_dssp             EEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTT-TTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEEC
T ss_pred             EEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChh-hhhcccCCccEEECCCCccccccCHHHhcCCCCCEEEC
Confidence            8888888776 7777777776 7888888888755556655 444  777888888887765444433334455555555


Q ss_pred             hcccce-eeEEeecCchhhhhhh-----------ccccccccccEEEecccCCccccc--ccccCCcceeEeccCccccc
Q 038405          649 LGNQIY-EISITLGSASALFKIN-----------FSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERV  714 (863)
Q Consensus       649 l~n~L~-~l~~~~~~~~~l~~l~-----------~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~  714 (863)
                      ..|.+. .++..+..++.++.+.           .....+++|+.|++++|......+  +..+++|++|++++|.+.+.
T Consensus       426 s~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~  505 (768)
T 3rgz_A          426 SFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGE  505 (768)
T ss_dssp             CSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSC
T ss_pred             cCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCc
Confidence            554443 2222222222222221           223345677788887777664433  77778888888888877654


Q ss_pred             CCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcchhhhhc
Q 038405          715 DPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIE  766 (863)
Q Consensus       715 ~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~  766 (863)
                      .+.  .+..+++|+.|++++|.....+ ..++.+++|+.|+|++|.....+|.
T Consensus       506 ~p~--~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~  556 (768)
T 3rgz_A          506 IPK--WIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA  556 (768)
T ss_dssp             CCG--GGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCG
T ss_pred             CCh--HHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCCh
Confidence            332  3456788888888888665444 4577888888888888876655554

>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=99.87  E-value=6.2e-22  Score=238.00  Aligned_cols=87  Identities=22%  Similarity=0.211  Sum_probs=51.8

Q ss_pred             CCCccEEeccCCcCccccchhhhcc-cccceeeccCCCcc-ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCce
Q 038405          544 MGALKVLDLSYNLDLTQLPAEMGAL-INLRCLNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV  621 (863)
Q Consensus       544 l~~L~~L~Ls~~~~i~~lp~~i~~L-~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~  621 (863)
                      +++|++|++++|.....+|..+..+ ++|++|++++|.+. .+|..++++++|++|++++|.....+|...++++++|++
T Consensus       268 l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~  347 (768)
T 3rgz_A          268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKV  347 (768)
T ss_dssp             CTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCE
T ss_pred             cCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCE
Confidence            3444444444442222455555443 66677777766665 556667777777777777766444666655667777777


Q ss_pred             eeccCcchh
Q 038405          622 FSLFSTELI  630 (863)
Q Consensus       622 L~l~~~~~~  630 (863)
                      |++++|.+.
T Consensus       348 L~Ls~n~l~  356 (768)
T 3rgz_A          348 LDLSFNEFS  356 (768)
T ss_dssp             EECCSSEEE
T ss_pred             EeCcCCccC
Confidence            777766554

>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=99.87  E-value=1.2e-21  Score=233.35  Aligned_cols=255  Identities=21%  Similarity=0.237  Sum_probs=165.9

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~  575 (863)
                      ..++++++.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|. .|+++++|++|+
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~  103 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELH  103 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSS-CCCCCCTTTTTTCTTCSEEE
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCC-ccCccChhhhccCCCCCEEE
Confidence            57899999999998887643   899999999999999888888999999999999999 7888886 589999999999


Q ss_pred             ccCCCccccc-hhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCC--ccccchhhhhhccc
Q 038405          576 LSNTSIEELP-SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN--QTTILDELECLGNQ  652 (863)
Q Consensus       576 L~~~~i~~lP-~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~--~~~~l~~L~~l~n~  652 (863)
                      +++|.+..+| ..++++++|++|++++|. +...+...++++++|++|++++|.+....+....  ....++.|....|.
T Consensus       104 L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~  182 (680)
T 1ziw_A          104 LMSNSIQKIKNNPFVKQKNLITLDLSHNG-LSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQ  182 (680)
T ss_dssp             CCSSCCCCCCSCTTTTCTTCCEEECCSSC-CSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCC
T ss_pred             CCCCccCccChhHccccCCCCEEECCCCc-ccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCc
Confidence            9999999887 468999999999999998 4444444488999999999999876543321110  22455555555544


Q ss_pred             ceeeEEe-ecCchhhhhhhccc--------------cccccccEEEecccCCccccc--ccccC--CcceeEeccCcccc
Q 038405          653 IYEISIT-LGSASALFKINFSW--------------KLCSCIKRLTIMHNLDSHSID--LRNMM--HLETLNIVECSLER  713 (863)
Q Consensus       653 L~~l~~~-~~~~~~l~~l~~~~--------------~~~~~L~~L~l~~~~~~~~~~--l~~~~--~L~~L~l~~~~l~~  713 (863)
                      +..++.. +..+..+..+....              -..++|+.|++++|......+  +..++  +|++|++++|.+..
T Consensus       183 l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~  262 (680)
T 1ziw_A          183 IKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNV  262 (680)
T ss_dssp             CCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEECTTSCCCE
T ss_pred             ccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEECCCCCcCc
Confidence            4432211 11111111000000              011456666666655443322  44443  36666666666555


Q ss_pred             cCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccC
Q 038405          714 VDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNC  758 (863)
Q Consensus       714 ~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~  758 (863)
                      +++.  .+..+++|+.|++++|...... ..+..+++|+.|++++|
T Consensus       263 ~~~~--~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~~  306 (680)
T 1ziw_A          263 VGND--SFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRS  306 (680)
T ss_dssp             ECTT--TTTTCTTCCEEECCSCCBSEECTTTTTTCTTCCEEECTTC
T ss_pred             cCcc--cccCcccccEeeCCCCccCccChhhhcCCCCccEEeccch
Confidence            5432  3345566666666666433322 23555555555555544

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.86  E-value=8.9e-22  Score=231.06  Aligned_cols=285  Identities=13%  Similarity=0.183  Sum_probs=179.4

Q ss_pred             ccccCCCC--CCCccEEEeecccccc------------------cchhhhh--cCCCccEEeccCCcCccccchhhhccc
Q 038405          512 IEYLPETP--CPHLQTLLVRFTVLEI------------------FPHRFFE--SMGALKVLDLSYNLDLTQLPAEMGALI  569 (863)
Q Consensus       512 ~~~l~~~~--~~~Lr~L~l~~~~l~~------------------l~~~~~~--~l~~L~~L~Ls~~~~i~~lp~~i~~L~  569 (863)
                      +..+|...  +++|++|++++|.+..                  +|.. ++  ++++|++|+|++|.....+|..+++++
T Consensus       195 l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~-l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~  273 (636)
T 4eco_A          195 ITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTED-LKWDNLKDLTDVEVYNCPNLTKLPTFLKALP  273 (636)
T ss_dssp             EEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSC-CCGGGCTTCCEEEEECCTTCSSCCTTTTTCS
T ss_pred             CccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchh-hhhcccCCCCEEEecCCcCCccChHHHhcCC
Confidence            33456554  8999999999999888                  7876 66  899999999999966788999999999


Q ss_pred             ccceeeccCCC-cc--ccchhhhcc------cCccEEecCCCCCccccch--hhhcCCCCCceeeccCcchhhhccCCCC
Q 038405          570 NLRCLNLSNTS-IE--ELPSEIMYL------KNLKILLLDGMRHFHLIPA--RVFSSLLSLKVFSLFSTELIELHRMPPN  638 (863)
Q Consensus       570 ~L~~L~L~~~~-i~--~lP~~i~~L------~~L~~L~l~~~~~l~~lp~--~~i~~L~~L~~L~l~~~~~~~~~~~~~~  638 (863)
                      +|++|++++|. ++  .+|..++++      ++|++|++++|. +..+|.  . ++++++|++|++++|.+.+..+ ...
T Consensus       274 ~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~~ip~~~~-l~~l~~L~~L~L~~N~l~g~ip-~~~  350 (636)
T 4eco_A          274 EMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETS-LQKMKKLGMLECLYNQLEGKLP-AFG  350 (636)
T ss_dssp             SCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSC-CSSCCCHHH-HTTCTTCCEEECCSCCCEEECC-CCE
T ss_pred             CCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCc-CCccCchhh-hccCCCCCEEeCcCCcCccchh-hhC
Confidence            99999999997 88  499999887      999999999998 558997  5 8999999999999998773323 444


Q ss_pred             ccccchhhhhhcccceeeEEeecCchh-hhhhhccc----------cc--cccccEEEecccCCccccc--cc-------
Q 038405          639 QTTILDELECLGNQIYEISITLGSASA-LFKINFSW----------KL--CSCIKRLTIMHNLDSHSID--LR-------  696 (863)
Q Consensus       639 ~~~~l~~L~~l~n~L~~l~~~~~~~~~-l~~l~~~~----------~~--~~~L~~L~l~~~~~~~~~~--l~-------  696 (863)
                      ....|+.|....|.+..++..+..+.. ++.+..+.          ..  +++|+.|++++|......+  +.       
T Consensus       351 ~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~  430 (636)
T 4eco_A          351 SEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPF  430 (636)
T ss_dssp             EEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCC
T ss_pred             CCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccc
Confidence            556677776666666544433322222 22222111          11  1144555555544433221  22       


Q ss_pred             ccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcc-cc-------cCCCcceEeeccCcchhhhhccc
Q 038405          697 NMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW-IR-------EAPNLQFLSLVNCQALSEIIESA  768 (863)
Q Consensus       697 ~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~-l~-------~l~~L~~L~L~~~~~l~~i~~~~  768 (863)
                      .+++|++|++++|.+..++..  .+..+++|+.|++++|.....++. +.       .+++|+.|+|++|... .+|.  
T Consensus       431 ~~~~L~~L~Ls~N~l~~lp~~--~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~--  505 (636)
T 4eco_A          431 KGINVSSINLSNNQISKFPKE--LFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLT-KLSD--  505 (636)
T ss_dssp             CCCCEEEEECCSSCCCSCCTH--HHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCC-BCCG--
T ss_pred             cCCCCCEEECcCCccCcCCHH--HHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCC-ccCh--
Confidence            334555555555554443221  112345555555555543321111 11       1225555555555422 3332  


Q ss_pred             CCccccccC--ccCcccceecccccccccccccCccCCCCccEEeec
Q 038405          769 GSSEVAESH--NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT  813 (863)
Q Consensus       769 ~~~~~~~~~--~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~  813 (863)
                             ..  ..+++|+.|+|+++ +++.++.....+++|+.|+++
T Consensus       506 -------~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~Ls  544 (636)
T 4eco_A          506 -------DFRATTLPYLVGIDLSYN-SFSKFPTQPLNSSTLKGFGIR  544 (636)
T ss_dssp             -------GGSTTTCTTCCEEECCSS-CCSSCCCGGGGCSSCCEEECC
T ss_pred             -------hhhhccCCCcCEEECCCC-CCCCcChhhhcCCCCCEEECC
Confidence                   22  25677777777764 444465555567777777764

>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=99.86  E-value=2.2e-21  Score=210.88  Aligned_cols=256  Identities=17%  Similarity=0.225  Sum_probs=200.6

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|.+.++.+..++.  +..+++|++|++++| .+..+|. +.++++|++|++++|.+..+| .+.++++|++|++
T Consensus        43 l~~L~~L~l~~~~i~~~~~--~~~~~~L~~L~l~~n-~i~~~~~-~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L~l  117 (347)
T 4fmz_A           43 LESITKLVVAGEKVASIQG--IEYLTNLEYLNLNGN-QITDISP-LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELYL  117 (347)
T ss_dssp             HTTCSEEECCSSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEEC
T ss_pred             cccccEEEEeCCccccchh--hhhcCCccEEEccCC-ccccchh-hhcCCcCCEEEccCCcccCch-HHcCCCcCCEEEC
Confidence            7899999999999988875  789999999999999 8888887 999999999999999999987 5999999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|.  +..+++|++|++++|.....          +..+..+. .|+.+.+..........    ...+++|
T Consensus       118 ~~n~-i~~~~~--~~~l~~L~~L~l~~n~~~~~----------~~~~~~l~-~L~~L~l~~~~~~~~~~----~~~l~~L  179 (347)
T 4fmz_A          118 NEDN-ISDISP--LANLTKMYSLNLGANHNLSD----------LSPLSNMT-GLNYLTVTESKVKDVTP----IANLTDL  179 (347)
T ss_dssp             TTSC-CCCCGG--GTTCTTCCEEECTTCTTCCC----------CGGGTTCT-TCCEEECCSSCCCCCGG----GGGCTTC
T ss_pred             cCCc-ccCchh--hccCCceeEEECCCCCCccc----------ccchhhCC-CCcEEEecCCCcCCchh----hccCCCC
Confidence            9998 667765  88999999999998753221          11122222 34444443333322222    3456789


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      +.|++++|.......+..+++|+.|++++|.+...++    +..+++|+.|++++|.. ..++.+..+++|+.|++++|.
T Consensus       180 ~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~----~~~~~~L~~L~l~~n~l-~~~~~~~~l~~L~~L~l~~n~  254 (347)
T 4fmz_A          180 YSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITP----VANMTRLNSLKIGNNKI-TDLSPLANLSQLTWLEIGTNQ  254 (347)
T ss_dssp             SEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECCSSCC-CCCGGGTTCTTCCEEECCSSC
T ss_pred             CEEEccCCcccccccccCCCccceeecccCCCCCCch----hhcCCcCCEEEccCCcc-CCCcchhcCCCCCEEECCCCc
Confidence            9999999988776668899999999999998877643    34789999999999964 455558999999999999996


Q ss_pred             chhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCC
Q 038405          760 ALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCP  816 (863)
Q Consensus       760 ~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~  816 (863)
                      . ..+          .....+++|+.|+++++ .++.++ ....+++|+.|++++|+
T Consensus       255 l-~~~----------~~~~~l~~L~~L~l~~n-~l~~~~-~~~~l~~L~~L~L~~n~  298 (347)
T 4fmz_A          255 I-SDI----------NAVKDLTKLKMLNVGSN-QISDIS-VLNNLSQLNSLFLNNNQ  298 (347)
T ss_dssp             C-CCC----------GGGTTCTTCCEEECCSS-CCCCCG-GGGGCTTCSEEECCSSC
T ss_pred             c-CCC----------hhHhcCCCcCEEEccCC-ccCCCh-hhcCCCCCCEEECcCCc
Confidence            4 322          23567899999999987 566653 24567899999988763

>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=6.3e-21  Score=215.82  Aligned_cols=295  Identities=17%  Similarity=0.238  Sum_probs=195.4

Q ss_pred             ccccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      .....+++.+.+.++.+..++... +++|++|++++|.+..++.  +..+++|++|++++| .+..+|. ++.+++|++|
T Consensus        86 ~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n-~l~~~~~-~~~l~~L~~L  161 (466)
T 1o6v_A           86 LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSN-TISDISA-LSGLTSLQQL  161 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG--GTTCTTCSEEEEEEE-EECCCGG-GTTCTTCSEE
T ss_pred             hhccccCCEEECCCCccccChhhcCCCCCCEEECCCCCCCCChH--HcCCCCCCEEECCCC-ccCCChh-hccCCcccEe
Confidence            566678999999999998887654 9999999999999998876  889999999999999 6666653 5555555555


Q ss_pred             eccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcc---
Q 038405          575 NLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGN---  651 (863)
Q Consensus       575 ~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n---  651 (863)
                      +++ +.+..++. +.++++|++|++++|. +..++.  +.++++|++|++++|.+....+  ......++.|....|   
T Consensus       162 ~l~-~~~~~~~~-~~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~  234 (466)
T 1o6v_A          162 SFG-NQVTDLKP-LANLTTLERLDISSNK-VSDISV--LAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLK  234 (466)
T ss_dssp             EEE-ESCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC
T ss_pred             ecC-CcccCchh-hccCCCCCEEECcCCc-CCCChh--hccCCCCCEEEecCCccccccc--ccccCCCCEEECCCCCcc
Confidence            543 22333322 4444444444444444 333322  3444444444444443322211  111122222222222   


Q ss_pred             ---------cceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCC
Q 038405          652 ---------QIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWT  722 (863)
Q Consensus       652 ---------~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~  722 (863)
                               .|+.+.+..........    ...+++|+.|++++|.......+..+++|++|++++|.+.++++    +.
T Consensus       235 ~~~~l~~l~~L~~L~l~~n~l~~~~~----~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~----~~  306 (466)
T 1o6v_A          235 DIGTLASLTNLTDLDLANNQISNLAP----LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP----IS  306 (466)
T ss_dssp             CCGGGGGCTTCSEEECCSSCCCCCGG----GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGG----GG
T ss_pred             cchhhhcCCCCCEEECCCCccccchh----hhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcccCchh----hc
Confidence                     33344333332222221    34567899999999988776678899999999999999887654    34


Q ss_pred             CCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCcc
Q 038405          723 NFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTM  802 (863)
Q Consensus       723 ~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~  802 (863)
                      .+++|+.|++++|.. ...+.+..+++|+.|++++|.. ..+          .....+++|+.|+++++. +..+.. ..
T Consensus       307 ~l~~L~~L~L~~n~l-~~~~~~~~l~~L~~L~l~~n~l-~~~----------~~l~~l~~L~~L~l~~n~-l~~~~~-~~  372 (466)
T 1o6v_A          307 NLKNLTYLTLYFNNI-SDISPVSSLTKLQRLFFYNNKV-SDV----------SSLANLTNINWLSAGHNQ-ISDLTP-LA  372 (466)
T ss_dssp             GCTTCSEEECCSSCC-SCCGGGGGCTTCCEEECCSSCC-CCC----------GGGTTCTTCCEEECCSSC-CCBCGG-GT
T ss_pred             CCCCCCEEECcCCcC-CCchhhccCccCCEeECCCCcc-CCc----------hhhccCCCCCEEeCCCCc-cCccch-hh
Confidence            789999999999965 4444588999999999999964 322          245678999999999874 444433 56


Q ss_pred             CCCCccEEeeccCCCCCCCCCC
Q 038405          803 PFPSLQNVSVTNCPNLRELPFN  824 (863)
Q Consensus       803 ~~~~L~~L~i~~C~~L~~lp~~  824 (863)
                      .+++|+.|.+++|+ ++.+|..
T Consensus       373 ~l~~L~~L~l~~n~-~~~~p~~  393 (466)
T 1o6v_A          373 NLTRITQLGLNDQA-WTNAPVN  393 (466)
T ss_dssp             TCTTCCEEECCCEE-EECCCBC
T ss_pred             cCCCCCEEeccCCc-ccCCchh
Confidence            68999999999874 5555543

>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=99.86  E-value=2.2e-21  Score=231.01  Aligned_cols=234  Identities=18%  Similarity=0.142  Sum_probs=162.0

Q ss_pred             ccccccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhccccc
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINL  571 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L  571 (863)
                      ......++.+.+.+|.+..++...   +++|++|++++|.+..+|...|..+++|++|++++| .+..+| ..++++++|
T Consensus        45 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L  123 (680)
T 1ziw_A           45 FTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNL  123 (680)
T ss_dssp             GGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTC
T ss_pred             HhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCC-ccCccChhHccccCCC
Confidence            456678999999999998876543   999999999999999999988999999999999999 666665 679999999


Q ss_pred             ceeeccCCCcccc-chhhhcccCccEEecCCCCCccccchhhhc--CCCCCceeeccCcchhhhccCCCCccccchhhhh
Q 038405          572 RCLNLSNTSIEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFS--SLLSLKVFSLFSTELIELHRMPPNQTTILDELEC  648 (863)
Q Consensus       572 ~~L~L~~~~i~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~--~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~  648 (863)
                      ++|++++|.+..+ |..++++++|++|++++|. +..++...+.  .+++|++|++++|.+....+........+..|..
T Consensus       124 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  202 (680)
T 1ziw_A          124 ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNK-IQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFL  202 (680)
T ss_dssp             CEEECCSSCCSCCCCCSSSCCTTCCEEECCSSC-CCCBCHHHHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEEC
T ss_pred             CEEECCCCcccccCchhhcccccCCEEEccCCc-ccccCHHHhhccccccccEEECCCCcccccChhhhhhhhhhhhhhc
Confidence            9999999998876 4568899999999999997 5566554344  5689999999998776554433323333332221


Q ss_pred             hc-----------------ccceeeEEeecCchhhhhhhcccccc--ccccEEEecccCCccccc--ccccCCcceeEec
Q 038405          649 LG-----------------NQIYEISITLGSASALFKINFSWKLC--SCIKRLTIMHNLDSHSID--LRNMMHLETLNIV  707 (863)
Q Consensus       649 l~-----------------n~L~~l~~~~~~~~~l~~l~~~~~~~--~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~  707 (863)
                      ..                 ..++.+.+.........  ......+  ++|+.|++++|......+  +..+++|++|+++
T Consensus       203 ~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~--~~~~~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  280 (680)
T 1ziw_A          203 NNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTS--NTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLE  280 (680)
T ss_dssp             TTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEEC--TTTTGGGGGSCCCEEECTTSCCCEECTTTTTTCTTCCEEECC
T ss_pred             cccccChhhHHHHHHHhhhccccEEEccCCcccccC--hhHhhccCcCCCCEEECCCCCcCccCcccccCcccccEeeCC
Confidence            11                 13333333222111110  0111112  347888888776655432  6777788888888


Q ss_pred             cCcccccCCCCCCCCCCCCCCEEEEecC
Q 038405          708 ECSLERVDPTFNGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       708 ~~~l~~~~~~~~~~~~l~~L~~L~L~~~  735 (863)
                      +|.+.+..+.  .+..+++|+.|++++|
T Consensus       281 ~n~l~~~~~~--~~~~l~~L~~L~L~~~  306 (680)
T 1ziw_A          281 YNNIQHLFSH--SLHGLFNVRYLNLKRS  306 (680)
T ss_dssp             SCCBSEECTT--TTTTCTTCCEEECTTC
T ss_pred             CCccCccChh--hhcCCCCccEEeccch
Confidence            7776665432  3345556666666554

>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=99.85  E-value=4.2e-21  Score=206.03  Aligned_cols=105  Identities=24%  Similarity=0.367  Sum_probs=77.5

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      .++++.|++++|.+..+|.. +..+++|++|+|++| .+..+|..++++++|++|++++|.+..+|..++++++|++|++
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~L  157 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQ-AFRLSHLQHMTIDAA-GLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSI  157 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSC-GGGGTTCSEEEEESS-CCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEE
T ss_pred             ccceeEEEccCCCchhcChh-hhhCCCCCEEECCCC-CccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEEC
Confidence            45677788888877777776 455888888888888 6667887788888888888888888888888888888888888


Q ss_pred             CCCCCccccchhhhc---------CCCCCceeeccCc
Q 038405          600 DGMRHFHLIPARVFS---------SLLSLKVFSLFST  627 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~---------~L~~L~~L~l~~~  627 (863)
                      ++|.....+|.. ++         ++++|++|++++|
T Consensus       158 ~~n~~~~~~p~~-~~~~~~~~~~~~l~~L~~L~L~~n  193 (328)
T 4fcg_A          158 RACPELTELPEP-LASTDASGEHQGLVNLQSLRLEWT  193 (328)
T ss_dssp             EEETTCCCCCSC-SEEEC-CCCEEESTTCCEEEEEEE
T ss_pred             CCCCCccccChh-HhhccchhhhccCCCCCEEECcCC
Confidence            887767777765 33         2555555555544

>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=99.85  E-value=3.1e-21  Score=223.68  Aligned_cols=145  Identities=23%  Similarity=0.283  Sum_probs=116.2

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEE  583 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~  583 (863)
                      .+..++.++.+|....++|++|++++|.+..+++..|..+++|++|++++| .+..+| ..++++++|++|++++|.+..
T Consensus        10 c~~~~~~l~~ip~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~Ls~n~l~~   88 (549)
T 2z81_A           10 CDGRSRSFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDNHLSS   88 (549)
T ss_dssp             EECTTSCCSSCCSCCCTTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSCCCS
T ss_pred             EECCCCccccccccCCCCccEEECcCCccCccChhhhhcCCcccEEECCCC-CcCccChhhccccccCCEEECCCCccCc
Confidence            455667888888877899999999999999988777999999999999999 666554 689999999999999999999


Q ss_pred             cchh-hhcccCccEEecCCCCCccc--cchhhhcCCCCCceeeccCcc-hhhhccCCCCccccchhhhhhccc
Q 038405          584 LPSE-IMYLKNLKILLLDGMRHFHL--IPARVFSSLLSLKVFSLFSTE-LIELHRMPPNQTTILDELECLGNQ  652 (863)
Q Consensus       584 lP~~-i~~L~~L~~L~l~~~~~l~~--lp~~~i~~L~~L~~L~l~~~~-~~~~~~~~~~~~~~l~~L~~l~n~  652 (863)
                      +|.. ++++++|++|++++|. +..  .|.. ++++++|++|++++|. +..+..........++.|....|.
T Consensus        89 ~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~-~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~  159 (549)
T 2z81_A           89 LSSSWFGPLSSLKYLNLMGNP-YQTLGVTSL-FPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALS  159 (549)
T ss_dssp             CCHHHHTTCTTCCEEECTTCC-CSSSCSSCS-CTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT
T ss_pred             cCHHHhccCCCCcEEECCCCc-ccccchhhh-hhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCc
Confidence            9876 9999999999999998 443  4544 8999999999999987 333333334344555555444433

>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=99.85  E-value=1e-20  Score=203.03  Aligned_cols=239  Identities=21%  Similarity=0.240  Sum_probs=148.0

Q ss_pred             cCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCcee
Q 038405          543 SMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF  622 (863)
Q Consensus       543 ~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L  622 (863)
                      ...++++|+|++| .+..+|..++++++|++|+|++|.+..+|..++++++|++|++++|. +..+|.. ++++++|++|
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  155 (328)
T 4fcg_A           79 TQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP-LRALPAS-IASLNRLREL  155 (328)
T ss_dssp             TSTTCCEEEEESS-CCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCC-CCCCCGG-GGGCTTCCEE
T ss_pred             cccceeEEEccCC-CchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCc-cccCcHH-HhcCcCCCEE
Confidence            4578999999999 88899999999999999999999999999999999999999999998 6688987 8999999999


Q ss_pred             eccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcc
Q 038405          623 SLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLE  702 (863)
Q Consensus       623 ~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~  702 (863)
                      ++++|......+...                ..                          ..+.       ..+.++++|+
T Consensus       156 ~L~~n~~~~~~p~~~----------------~~--------------------------~~~~-------~~~~~l~~L~  186 (328)
T 4fcg_A          156 SIRACPELTELPEPL----------------AS--------------------------TDAS-------GEHQGLVNLQ  186 (328)
T ss_dssp             EEEEETTCCCCCSCS----------------EE--------------------------EC-C-------CCEEESTTCC
T ss_pred             ECCCCCCccccChhH----------------hh--------------------------ccch-------hhhccCCCCC
Confidence            999875432211110                00                          0000       0133445555


Q ss_pred             eeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcc
Q 038405          703 TLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAY  782 (863)
Q Consensus       703 ~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~  782 (863)
                      +|++++|.++.++.   .+..+++|+.|++++|.....++.+..+++|++|+|++|.....+|.         ....+++
T Consensus       187 ~L~L~~n~l~~lp~---~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~---------~~~~l~~  254 (328)
T 4fcg_A          187 SLRLEWTGIRSLPA---SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP---------IFGGRAP  254 (328)
T ss_dssp             EEEEEEECCCCCCG---GGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCC---------CTTCCCC
T ss_pred             EEECcCCCcCcchH---hhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHH---------HhcCCCC
Confidence            55555555443322   23345555555555554433334455555555555555554443332         2334555


Q ss_pred             cceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEchHhhhhcCc
Q 038405          783 LMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWWEQLQ  846 (863)
Q Consensus       783 L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~~~~~~~~l~  846 (863)
                      |+.|+|++|..+..++.....+++|+.|++++|+.+..+|..... ..++..+.....+...+.
T Consensus       255 L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~-L~~L~~l~l~~~~~~~l~  317 (328)
T 4fcg_A          255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQ-LPANCIILVPPHLQAQLD  317 (328)
T ss_dssp             CCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGG-SCTTCEEECCGGGSCC--
T ss_pred             CCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhh-ccCceEEeCCHHHHHHHh
Confidence            555555555555555554455555666666666555555544332 244555554444444433

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.85  E-value=1.1e-20  Score=211.95  Aligned_cols=281  Identities=19%  Similarity=0.207  Sum_probs=168.6

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|++++|.+..+|.  +..+++|++|++++| .+..+|  ++.+++|++|++++|.+..+|  ++++++|++|++
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 LATLTSLDCHNSSITDMTG--IEKLTGLTKLICTSN-NITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNC  113 (457)
T ss_dssp             HTTCCEEECCSSCCCCCTT--GGGCTTCSEEECCSS-CCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEEC
T ss_pred             cCCCCEEEccCCCcccChh--hcccCCCCEEEccCC-cCCeEc--cccCCCCCEEECcCCCCceee--cCCCCcCCEEEC
Confidence            7899999999999998873  889999999999999 788887  899999999999999999986  899999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcc-cceeeEEeecCchhhhhhhcc------
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGN-QIYEISITLGSASALFKINFS------  672 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n-~L~~l~~~~~~~~~l~~l~~~------  672 (863)
                      ++|. +..+|   ++++++|++|++++|.+..+.   ......++.|....| .+..+  .+..++.++.+..+      
T Consensus       114 ~~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          114 DTNK-LTKLD---VSQNPLLTYLNCARNTLTEID---VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITE  184 (457)
T ss_dssp             CSSC-CSCCC---CTTCTTCCEEECTTSCCSCCC---CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCC
T ss_pred             CCCc-CCeec---CCCCCcCCEEECCCCccceec---cccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCccce
Confidence            9997 66676   789999999999999876642   223444555544443 11111  01111111111100      


Q ss_pred             --ccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCc
Q 038405          673 --WKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNL  750 (863)
Q Consensus       673 --~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L  750 (863)
                        ...+++|+.|++++|..... ++..+++|+.|++++|.+++++     +..+++|+.|++++|.... ++ ++.+++|
T Consensus       185 l~l~~l~~L~~L~l~~N~l~~~-~l~~l~~L~~L~Ls~N~l~~ip-----~~~l~~L~~L~l~~N~l~~-~~-~~~l~~L  256 (457)
T 3bz5_A          185 LDVSQNKLLNRLNCDTNNITKL-DLNQNIQLTFLDCSSNKLTEID-----VTPLTQLTYFDCSVNPLTE-LD-VSTLSKL  256 (457)
T ss_dssp             CCCTTCTTCCEEECCSSCCSCC-CCTTCTTCSEEECCSSCCSCCC-----CTTCTTCSEEECCSSCCSC-CC-CTTCTTC
T ss_pred             eccccCCCCCEEECcCCcCCee-ccccCCCCCEEECcCCcccccC-----ccccCCCCEEEeeCCcCCC-cC-HHHCCCC
Confidence              12233444444444443322 2444455555555555444432     1234555555555553222 11 2233333


Q ss_pred             ceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCC
Q 038405          751 QFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSA  828 (863)
Q Consensus       751 ~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~  828 (863)
                      +.|+++++. ++.+.-.............+++|+.|++++++.+..++.   .+++|+.|.+++|++|+.|.++.+..
T Consensus       257 ~~L~l~~n~-L~~L~l~~n~~~~~~~~~~l~~L~~L~Ls~n~~l~~l~~---~~~~L~~L~l~~~~~L~~L~L~~N~l  330 (457)
T 3bz5_A          257 TTLHCIQTD-LLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDC---QAAGITELDLSQNPKLVYLYLNNTEL  330 (457)
T ss_dssp             CEEECTTCC-CSCCCCTTCTTCCEEECTTCTTCCCCCCTTCTTCCEEEC---TTCCCSCCCCTTCTTCCEEECTTCCC
T ss_pred             CEEeccCCC-CCEEECCCCccCCcccccccccCCEEECCCCcccceecc---CCCcceEechhhcccCCEEECCCCcc
Confidence            333332221 111100000000001234567888888888877777664   34566667777777777776665543

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.84  E-value=4.8e-21  Score=204.31  Aligned_cols=242  Identities=17%  Similarity=0.176  Sum_probs=138.3

Q ss_pred             cceEEEeccCCcc---ccCCCC--CCCccEEEeec-cccc-ccchhhhhcCCCccEEeccCCcCcc-ccchhhhcccccc
Q 038405          501 EDFRLSLWGSSIE---YLPETP--CPHLQTLLVRF-TVLE-IFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLR  572 (863)
Q Consensus       501 ~~~~l~l~~~~~~---~l~~~~--~~~Lr~L~l~~-~~l~-~l~~~~~~~l~~L~~L~Ls~~~~i~-~lp~~i~~L~~L~  572 (863)
                      +++.+.+.++.+.   .+|...  +++|++|++++ |.+. .+|. .|..+++|++|++++| .+. .+|..++++++|+
T Consensus        51 ~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           51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPP-AIAKLTQLHYLYITHT-NVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCG-GGGGCTTCSEEEEEEE-CCEEECCGGGGGCTTCC
T ss_pred             eEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCCh-hHhcCCCCCEEECcCC-eeCCcCCHHHhCCCCCC
Confidence            5666666666665   244433  66666666663 5444 3333 3566666666666666 343 6666666666666


Q ss_pred             eeeccCCCcc-ccchhhhcccCccEEecCCCCCccccchhhhcCCC-CCceeeccCcchhhhccCCCCccccchhhhhhc
Q 038405          573 CLNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLL-SLKVFSLFSTELIELHRMPPNQTTILDELECLG  650 (863)
Q Consensus       573 ~L~L~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~-~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~  650 (863)
                      +|++++|.+. .+|..++++++|++|++++|.....+|.. +++++ +|++|++++|.+....+.               
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~~L~~L~L~~N~l~~~~~~---------------  192 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRLTGKIPP---------------  192 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEEEEECCG---------------
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH-HhhhhhcCcEEECcCCeeeccCCh---------------
Confidence            6666666666 56666666666666666666633355655 55665 666666665543211000               


Q ss_pred             ccceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCC
Q 038405          651 NQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLH  728 (863)
Q Consensus       651 n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~  728 (863)
                                           ....++ |+.|++++|......+  +..+++|+.|++++|.+....+.   +..+++|+
T Consensus       193 ---------------------~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~---~~~l~~L~  247 (313)
T 1ogq_A          193 ---------------------TFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK---VGLSKNLN  247 (313)
T ss_dssp             ---------------------GGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG---CCCCTTCC
T ss_pred             ---------------------HHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc---ccccCCCC
Confidence                                 001112 6666666665543332  66667777777777766544221   23466777


Q ss_pred             EEEEecCCCCCCC-cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccccccc
Q 038405          729 HLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLK  795 (863)
Q Consensus       729 ~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~  795 (863)
                      +|++++|.....+ ..+..+++|++|+|++|.....+|.          ...+++|+.+.+.+.+.+.
T Consensus       248 ~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~----------~~~l~~L~~l~l~~N~~lc  305 (313)
T 1ogq_A          248 GLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ----------GGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             EEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCC----------STTGGGSCGGGTCSSSEEE
T ss_pred             EEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCC----------CccccccChHHhcCCCCcc
Confidence            7777777554233 4566677777777777765444432          1445666666666555443

>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=99.83  E-value=4.1e-20  Score=212.62  Aligned_cols=308  Identities=19%  Similarity=0.162  Sum_probs=183.4

Q ss_pred             ccccccceEEEeccCCccccCC-CC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccc--cchhhhcccc
Q 038405          496 ADSWREDFRLSLWGSSIEYLPE-TP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ--LPAEMGALIN  570 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~-~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~--lp~~i~~L~~  570 (863)
                      .....+++.+.+.+|.+..++. ..  +++|++|++++|.+..+|..   .+++|++|++++| .+..  +|..++++++
T Consensus        41 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~---~l~~L~~L~L~~N-~l~~~~~p~~~~~l~~  116 (520)
T 2z7x_B           41 ILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCH---PTVNLKHLDLSFN-AFDALPICKEFGNMSQ  116 (520)
T ss_dssp             HTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCCEEECC---CCCCCSEEECCSS-CCSSCCCCGGGGGCTT
T ss_pred             ccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCceeecCcc---ccCCccEEeccCC-ccccccchhhhccCCc
Confidence            4456789999999999988743 33  89999999999999999875   7999999999999 6654  6789999999


Q ss_pred             cceeeccCCCccccchhhhcccCc--cEEecCCCCC--ccccchhhhc--------------------------CCCCCc
Q 038405          571 LRCLNLSNTSIEELPSEIMYLKNL--KILLLDGMRH--FHLIPARVFS--------------------------SLLSLK  620 (863)
Q Consensus       571 L~~L~L~~~~i~~lP~~i~~L~~L--~~L~l~~~~~--l~~lp~~~i~--------------------------~L~~L~  620 (863)
                      |++|++++|.+..  ..+..+++|  ++|++++|..  ....|.. +.                          ++++|+
T Consensus       117 L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~~~~~-l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~  193 (520)
T 2z7x_B          117 LKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGETYGEKEDPEG-LQDFNTESLHIVFPTNKEFHFILDVSVKTVANLE  193 (520)
T ss_dssp             CCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECTTTTSSCCTTT-TTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEE
T ss_pred             ceEEEecCcccch--hhccccccceeeEEEeeccccccccccccc-ccccccceEEEEeccCcchhhhhhhhhhccccee
Confidence            9999999999876  356777777  8888888764  2223322 22                          233444


Q ss_pred             eeeccCc---------------------------------------------------------chhhhccCCC-----C
Q 038405          621 VFSLFST---------------------------------------------------------ELIELHRMPP-----N  638 (863)
Q Consensus       621 ~L~l~~~---------------------------------------------------------~~~~~~~~~~-----~  638 (863)
                      .|++++|                                                         .+.+..+...     .
T Consensus       194 ~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~~  273 (520)
T 2z7x_B          194 LSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGT  273 (520)
T ss_dssp             ECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHHHHHHHHHHHHTSSCSEEEEEEEEEESCCCCCCCCCCSC
T ss_pred             eccccccccccccceeecchhhhccccchhhccccccccCHHHHHHHHHHhhhCcccEEEeecccccCccccchhhcccc
Confidence            4444333                                                         2211101100     1


Q ss_pred             ccccchhhhhhccc----------------ceeeEEeecCchhhhhhhccccccccccEEEecccCCcccc--cccccCC
Q 038405          639 QTTILDELECLGNQ----------------IYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLRNMMH  700 (863)
Q Consensus       639 ~~~~l~~L~~l~n~----------------L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~--~l~~~~~  700 (863)
                      ....++.+....|.                ++.+.+.-.......    ....+++|+.|++++|......  .+..+++
T Consensus       274 ~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n~l~~~~----~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  349 (520)
T 2z7x_B          274 SLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHML----CPSKISPFLHLDFSNNLLTDTVFENCGHLTE  349 (520)
T ss_dssp             CCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESSCCCCCC----CCSSCCCCCEEECCSSCCCTTTTTTCCCCSS
T ss_pred             cCceeEeccccccceecchhhhhcccccCceeEEEcCCCcccccc----chhhCCcccEEEeECCccChhhhhhhccCCC
Confidence            11111111111110                111111111100000    0135667888888887766532  2677778


Q ss_pred             cceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc--ccccCCCcceEeeccCcchhhhhcccC--C------
Q 038405          701 LETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT--WIREAPNLQFLSLVNCQALSEIIESAG--S------  770 (863)
Q Consensus       701 L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~--~l~~l~~L~~L~L~~~~~l~~i~~~~~--~------  770 (863)
                      |++|++++|.+.+++.....+..+++|+.|++++|.....++  .+..+++|+.|++++|.....++....  .      
T Consensus       350 L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls  429 (520)
T 2z7x_B          350 LETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLH  429 (520)
T ss_dssp             CCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECC
T ss_pred             CCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcchhhhhcccCCEEECC
Confidence            888888888776532110023457777777777776544233  256667777777777765444332211  0      


Q ss_pred             ----ccccccCccCcccceecccccccccccccC-ccCCCCccEEeeccC
Q 038405          771 ----SEVAESHNYFAYLMVIDLDSLPSLKRICHG-TMPFPSLQNVSVTNC  815 (863)
Q Consensus       771 ----~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~-~~~~~~L~~L~i~~C  815 (863)
                          ...+.....+++|+.|+++++ +++.++.. ...+++|+.|+++++
T Consensus       430 ~N~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N  478 (520)
T 2z7x_B          430 SNKIKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDRLTSLQKIWLHTN  478 (520)
T ss_dssp             SSCCCCCCGGGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCcccccchhhhcCCCCCEEECCCC-cCCccCHHHhccCCcccEEECcCC
Confidence                111222346778888888876 56666554 334555555555554

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

Probab=99.83  E-value=3.9e-20  Score=224.74  Aligned_cols=300  Identities=17%  Similarity=0.156  Sum_probs=206.6

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i  581 (863)
                      +.+..+++.++.+|. ..+++++|++++|.+..+++..|..+++|++|+|++|..+..+ |..|+++++|++|+|++|.|
T Consensus         7 ~~~dcs~~~L~~vP~-lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l   85 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ-VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKI   85 (844)
T ss_dssp             EEEEESCCCSSCCCS-SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCC
T ss_pred             eEEEccCCCCCCCCC-CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcC
Confidence            345666778888888 7899999999999999988777999999999999999666666 77899999999999999999


Q ss_pred             ccc-chhhhcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcchhhhccC-CCCccccchhhhhhcccceeeEE
Q 038405          582 EEL-PSEIMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIELHRM-PPNQTTILDELECLGNQIYEISI  658 (863)
Q Consensus       582 ~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~~~~~-~~~~~~~l~~L~~l~n~L~~l~~  658 (863)
                      ..+ |..++++++|++|++++|.....+|. ..++++++|++|++++|.+....+. .+....+|+.|....|.+.....
T Consensus        86 ~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~  165 (844)
T 3j0a_A           86 YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCE  165 (844)
T ss_dssp             CEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCS
T ss_pred             cccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCH
Confidence            987 77899999999999999984443443 3488999999999999987654332 22344455555544444432211


Q ss_pred             e-ecCc--hhhhhhhcc-----------ccccc------cccEEEecccCCccccc------------------------
Q 038405          659 T-LGSA--SALFKINFS-----------WKLCS------CIKRLTIMHNLDSHSID------------------------  694 (863)
Q Consensus       659 ~-~~~~--~~l~~l~~~-----------~~~~~------~L~~L~l~~~~~~~~~~------------------------  694 (863)
                      . +..+  ..+..+..+           +..+.      .|+.|++++|.......                        
T Consensus       166 ~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~  245 (844)
T 3j0a_A          166 HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGA  245 (844)
T ss_dssp             GGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBC
T ss_pred             HHcccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccc
Confidence            0 0000  111111111           11112      37888888774321110                        


Q ss_pred             --------------ccc--cCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeecc
Q 038405          695 --------------LRN--MMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVN  757 (863)
Q Consensus       695 --------------l~~--~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~  757 (863)
                                    +.+  .++|+.|++++|.+..+.+.  .+..+++|+.|+|++|...... ..+..+++|++|+|++
T Consensus       246 ~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~--~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~  323 (844)
T 3j0a_A          246 GFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSR--VFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSY  323 (844)
T ss_dssp             SSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSC--CSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEES
T ss_pred             cccccccCCCChhhhhccccCCccEEECCCCcccccChh--hhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCC
Confidence                          111  26899999999988777544  4668899999999999765443 3578899999999999


Q ss_pred             CcchhhhhcccCCccccccCccCcccceeccccccccccccc-CccCCCCccEEeeccC
Q 038405          758 CQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICH-GTMPFPSLQNVSVTNC  815 (863)
Q Consensus       758 ~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~-~~~~~~~L~~L~i~~C  815 (863)
                      |......+         .....+++|+.|+++++ .+..+.. ....+++|+.|++++|
T Consensus       324 N~l~~~~~---------~~~~~l~~L~~L~L~~N-~i~~~~~~~~~~l~~L~~L~Ls~N  372 (844)
T 3j0a_A          324 NLLGELYS---------SNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDN  372 (844)
T ss_dssp             CCCSCCCS---------CSCSSCTTCCEEECCSC-CCCCCCSSCSCSCCCCCEEEEETC
T ss_pred             CCCCccCH---------HHhcCCCCCCEEECCCC-CCCccChhhhcCCCCCCEEECCCC
Confidence            97432222         24456778888877765 3444433 2334566666666654

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.83  E-value=2.7e-20  Score=198.57  Aligned_cols=253  Identities=17%  Similarity=0.159  Sum_probs=201.5

Q ss_pred             CCccEEEeecccccc---cchhhhhcCCCccEEeccC-CcCccccchhhhcccccceeeccCCCcc-ccchhhhcccCcc
Q 038405          521 PHLQTLLVRFTVLEI---FPHRFFESMGALKVLDLSY-NLDLTQLPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLK  595 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~---l~~~~~~~l~~L~~L~Ls~-~~~i~~lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~  595 (863)
                      .+++.|++++|.+..   +|.. +..+++|++|++++ |.....+|..++++++|++|++++|.+. .+|..++++++|+
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 YRVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccChh-HhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            579999999998874   6654 88999999999995 6445589999999999999999999998 8899999999999


Q ss_pred             EEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccc
Q 038405          596 ILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKL  675 (863)
Q Consensus       596 ~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~  675 (863)
                      +|++++|.....+|.. ++++++|++|++++|.+.+..+.                                    ....
T Consensus       129 ~L~Ls~N~l~~~~p~~-~~~l~~L~~L~L~~N~l~~~~p~------------------------------------~l~~  171 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISGAIPD------------------------------------SYGS  171 (313)
T ss_dssp             EEECCSSEEESCCCGG-GGGCTTCCEEECCSSCCEEECCG------------------------------------GGGC
T ss_pred             EEeCCCCccCCcCChH-HhcCCCCCeEECcCCcccCcCCH------------------------------------HHhh
Confidence            9999999855577876 89999999999998765321110                                    0111


Q ss_pred             cc-cccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcce
Q 038405          676 CS-CIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQF  752 (863)
Q Consensus       676 ~~-~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~  752 (863)
                      ++ .|+.|++++|......+  +..++ |+.|++++|.+.+..+.  .+..+++|+.|++++|.....++.+..+++|++
T Consensus       172 l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~--~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~  248 (313)
T 1ogq_A          172 FSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASV--LFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNG  248 (313)
T ss_dssp             CCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGG--GCCTTSCCSEEECCSSEECCBGGGCCCCTTCCE
T ss_pred             hhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCH--HHhcCCCCCEEECCCCceeeecCcccccCCCCE
Confidence            22 68889998887654332  66766 99999999998766443  456799999999999977666777889999999


Q ss_pred             EeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCC
Q 038405          753 LSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFN  824 (863)
Q Consensus       753 L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~  824 (863)
                      |+|++|.....+|.         ....+++|+.|+++++.--..++.. ..+++|+.+.+.+++.|...|..
T Consensus       249 L~Ls~N~l~~~~p~---------~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~N~~lc~~p~~  310 (313)
T 1ogq_A          249 LDLRNNRIYGTLPQ---------GLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCGSPLP  310 (313)
T ss_dssp             EECCSSCCEECCCG---------GGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCSSSEEESTTSS
T ss_pred             EECcCCcccCcCCh---------HHhcCcCCCEEECcCCcccccCCCC-ccccccChHHhcCCCCccCCCCC
Confidence            99999986545543         4567899999999987544456554 67889999999998888776653

>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=99.83  E-value=4.1e-20  Score=196.86  Aligned_cols=239  Identities=19%  Similarity=0.198  Sum_probs=167.6

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc---chhhhcccccceeeccCCC
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL---PAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l---p~~i~~L~~L~~L~L~~~~  580 (863)
                      .+...++.++.+|....++|++|++++|.+..+|..+|..+++|++|++++| .+...   |..+..+++|++|++++|.
T Consensus        11 ~l~c~~~~l~~ip~~~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~   89 (306)
T 2z66_A           11 EIRCNSKGLTSVPTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSFNG   89 (306)
T ss_dssp             EEECCSSCCSSCCSCCCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCSCS
T ss_pred             EEEcCCCCcccCCCCCCCCCCEEECCCCccCccCHhHhhccccCCEEECCCC-ccCcccCcccccccccccCEEECCCCc
Confidence            5677777888888877889999999999999999988899999999999999 66544   6778889999999999999


Q ss_pred             ccccchhhhcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      +..+|..+..+++|++|++++|. +..++. ..+.++++|++|++++|.+....+...                      
T Consensus        90 i~~l~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----------------------  146 (306)
T 2z66_A           90 VITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF----------------------  146 (306)
T ss_dssp             EEEEEEEEETCTTCCEEECTTSE-EESSTTTTTTTTCTTCCEEECTTSCCEECSTTTT----------------------
T ss_pred             cccChhhcCCCCCCCEEECCCCc-ccccccchhhhhccCCCEEECCCCcCCccchhhc----------------------
Confidence            99999999999999999999987 566654 458899999999999876543322211                      


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCcc--cc-cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSH--SI-DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP  736 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~--~~-~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~  736 (863)
                                    ..+++|+.|++++|....  .+ .+..+++|++|++++|.+.++++.  .+..+++|+.|++++|.
T Consensus       147 --------------~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~--~~~~l~~L~~L~L~~N~  210 (306)
T 2z66_A          147 --------------NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT--AFNSLSSLQVLNMSHNN  210 (306)
T ss_dssp             --------------TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTT--TTTTCTTCCEEECTTSC
T ss_pred             --------------ccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHH--HhcCCCCCCEEECCCCc
Confidence                          123355666666655433  11 256666677777777766665433  34456667777776665


Q ss_pred             CCCCCc-ccccCCCcceEeeccCcchhhhhcccCCccccccCccCc-ccceeccccc
Q 038405          737 VIRDLT-WIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFA-YLMVIDLDSL  791 (863)
Q Consensus       737 ~~~~l~-~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~-~L~~L~L~~~  791 (863)
                      .....+ .+..+++|+.|+|++|......+         .....++ +|+.|+++++
T Consensus       211 l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~---------~~~~~~~~~L~~L~L~~N  258 (306)
T 2z66_A          211 FFSLDTFPYKCLNSLQVLDYSLNHIMTSKK---------QELQHFPSSLAFLNLTQN  258 (306)
T ss_dssp             CSBCCSGGGTTCTTCCEEECTTSCCCBCSS---------SSCCCCCTTCCEEECTTC
T ss_pred             cCccChhhccCcccCCEeECCCCCCcccCH---------HHHHhhhccCCEEEccCC
Confidence            433322 35666777777777665433222         1223343 6666666654

>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=99.82  E-value=6.9e-20  Score=212.60  Aligned_cols=141  Identities=16%  Similarity=0.114  Sum_probs=88.0

Q ss_pred             cccccccEEEecccCCcccc--cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc--ccccCCC
Q 038405          674 KLCSCIKRLTIMHNLDSHSI--DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT--WIREAPN  749 (863)
Q Consensus       674 ~~~~~L~~L~l~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~--~l~~l~~  749 (863)
                      ..+++|+.|++++|......  .+..+++|+.|++++|.+++++.....+..+++|+.|++++|.....++  .+..+++
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            34567888888888776533  2788889999999999887653211134578889999998887655233  3667788


Q ss_pred             cceEeeccCcchhhhhcccC--C----------ccccccCccCcccceecccccccccccccC-ccCCCCccEEeeccC
Q 038405          750 LQFLSLVNCQALSEIIESAG--S----------SEVAESHNYFAYLMVIDLDSLPSLKRICHG-TMPFPSLQNVSVTNC  815 (863)
Q Consensus       750 L~~L~L~~~~~l~~i~~~~~--~----------~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~-~~~~~~L~~L~i~~C  815 (863)
                      |+.|++++|.....++....  .          ..+......+++|+.|+++++ +++.++.. ...+++|+.|+++++
T Consensus       430 L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N  507 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHDN  507 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCCTTCSEEECCSSCCCCCCTTTTSSCCCSEEECCSS-CCCCCCTTSTTTCTTCCCEECCSC
T ss_pred             CCEEECCCCCCCcchhhhhcCcCCEEECCCCcCcccChhhcCCCCCCEEECCCC-CCCCCCHHHHhcCCCCCEEEecCC
Confidence            88888888775444443221  0          111222336677788887774 45555544 333444444444443

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

Probab=99.82  E-value=1.1e-20  Score=202.00  Aligned_cols=267  Identities=15%  Similarity=0.149  Sum_probs=173.4

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|++++|.+..+++..|..+++|++|+|++| .+...+. ++.+++|++|++++|.++.+|.    +++|++|++
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~~----~~~L~~L~l  106 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLHA  106 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTS-CCEEEEE-ETTCTTCCEEECCSSEEEEEEE----CTTCCEEEC
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCC-cCCcchh-hhhcCCCCEEECcCCccccccC----CCCcCEEEC
Confidence            568889999988888888777888899999999988 6665555 8888899999999988887763    478889999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..++..   .+++|++|++++|.+....+........++.|....|.+..+...        .   ....+++|
T Consensus       107 ~~n~-l~~~~~~---~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~--------~---~~~~l~~L  171 (317)
T 3o53_A          107 ANNN-ISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFA--------E---LAASSDTL  171 (317)
T ss_dssp             CSSC-CSEEEEC---CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGG--------G---GGGGTTTC
T ss_pred             CCCc-cCCcCcc---ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHH--------H---HhhccCcC
Confidence            8887 5555543   467888888888877655444333344444444444444332210        0   01124567


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      +.|++++|..........+++|++|++++|.+..+++   .+..+++|+.|++++|.....++.+..+++|+.|++++|.
T Consensus       172 ~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~---~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          172 EHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGP---EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             CEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECG---GGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             CEEECCCCcCcccccccccccCCEEECCCCcCCcchh---hhcccCcccEEECcCCcccchhhHhhcCCCCCEEEccCCC
Confidence            7777777766555545556777777777777766644   2445677777777777544333456677777777777776


Q ss_pred             ch-hhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCC
Q 038405          760 AL-SEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLR  819 (863)
Q Consensus       760 ~l-~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~  819 (863)
                      .. ..++.         ....+++|+.+.+.+++.++.........+.+....-..|..|.
T Consensus       249 ~~~~~~~~---------~~~~~~~L~~l~l~~~~~l~~~~~~~~~~~~~~~~~~~cc~~l~  300 (317)
T 3o53_A          249 FHCGTLRD---------FFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLP  300 (317)
T ss_dssp             CBHHHHHH---------HHHTCHHHHHHHHHHHHHHHSSSSCCCSSTTCEEETTEEEBCCT
T ss_pred             ccCcCHHH---------HHhccccceEEECCCchhccCCchhccCCCceecccceeeccCC
Confidence            54 22222         23446677777776666666554444444444444444555554

>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=99.81  E-value=2e-19  Score=202.61  Aligned_cols=239  Identities=16%  Similarity=0.165  Sum_probs=159.1

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i  581 (863)
                      ..+...+..+..+|....+++++|++++|.+..+++..|..+++|++|+|++| .+..+ |..+.++++|++|+|++|.+
T Consensus        57 ~~v~c~~~~l~~iP~~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~L~~n~l  135 (452)
T 3zyi_A           57 SKVVCTRRGLSEVPQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDNWL  135 (452)
T ss_dssp             CEEECCSSCCSSCCSCCCTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             cEEEECCCCcCccCCCCCCCccEEECcCCcCceECHHHcCCCCCCCEEECCCC-ccCCcChhhccCcccCCEEECCCCcC
Confidence            34555666666777666677777777777777776666777777888888777 45544 35677777778888877777


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcc-hhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTE-LIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~-~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      ..+|.. +..+++|++|++++|. +..+|...+.++++|++|++++|. +..+....+....+|+.|....|.+..++  
T Consensus       136 ~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~--  212 (452)
T 3zyi_A          136 TVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP--  212 (452)
T ss_dssp             SBCCTTTSSSCTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCC--
T ss_pred             CccChhhhcccCCCCEEECCCCC-cceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccc--
Confidence            777655 6677777888877776 566666667777777777777643 22222222223334444444443333221  


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV  737 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~  737 (863)
                                  ....+++|+.|++++|......+  +.++++|+.|++++|.+..+.+.  .+..+++|+.|+|++|..
T Consensus       213 ------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~--~~~~l~~L~~L~L~~N~l  278 (452)
T 3zyi_A          213 ------------NLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERN--AFDGLASLVELNLAHNNL  278 (452)
T ss_dssp             ------------CCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTT--TTTTCTTCCEEECCSSCC
T ss_pred             ------------cccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHH--HhcCCCCCCEEECCCCcC
Confidence                        12345578888888887765543  77888888888888887777554  456778888888888854


Q ss_pred             CCCC-cccccCCCcceEeeccCc
Q 038405          738 IRDL-TWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       738 ~~~l-~~l~~l~~L~~L~L~~~~  759 (863)
                      ...+ ..+..+++|+.|+|++|+
T Consensus       279 ~~~~~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          279 SSLPHDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             SCCCTTSSTTCTTCCEEECCSSC
T ss_pred             CccChHHhccccCCCEEEccCCC
Confidence            4333 236778888888888775

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

Probab=99.81  E-value=2.3e-19  Score=201.39  Aligned_cols=239  Identities=18%  Similarity=0.249  Sum_probs=157.8

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i  581 (863)
                      ..+...+..+..+|....++++.|++++|.+..++...|..+++|++|+|++| .+..++ ..+.++++|++|+|++|.|
T Consensus        46 ~~v~c~~~~l~~iP~~~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~~~~l~~L~~L~L~~n~l  124 (440)
T 3zyj_A           46 SKVICVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAFNGLANLNTLELFDNRL  124 (440)
T ss_dssp             CEEECCSCCCSSCCSCCCTTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSS-CCCEECGGGGTTCSSCCEEECCSSCC
T ss_pred             CEEEeCCCCcCcCCCCCCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCC-cCCccChhhccCCccCCEEECCCCcC
Confidence            45566666777777766777888888888777777666777888888888887 555444 5677788888888888888


Q ss_pred             cccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcc-hhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          582 EELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTE-LIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       582 ~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~-~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      +.+|. .+..+++|++|++++|. +..+|...+.++++|++|++.+|. +..+....+....+|+.|....|.+..++  
T Consensus       125 ~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~--  201 (440)
T 3zyj_A          125 TTIPNGAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP--  201 (440)
T ss_dssp             SSCCTTTSCSCSSCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCC--
T ss_pred             CeeCHhHhhccccCceeeCCCCc-ccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcccc--
Confidence            77776 37778888888888776 666666667778888888887643 22222222223334444444443333222  


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV  737 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~  737 (863)
                                  ....+++|+.|++++|......+  +..+++|++|++++|.+..+++.  .+..+++|+.|+|++|..
T Consensus       202 ------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~--~~~~l~~L~~L~L~~N~l  267 (440)
T 3zyj_A          202 ------------NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERN--AFDNLQSLVEINLAHNNL  267 (440)
T ss_dssp             ------------CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTT--SSTTCTTCCEEECTTSCC
T ss_pred             ------------ccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEChh--hhcCCCCCCEEECCCCCC
Confidence                        12234567777777776655432  67777888888888777766543  455677788888877754


Q ss_pred             CCCC-cccccCCCcceEeeccCc
Q 038405          738 IRDL-TWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       738 ~~~l-~~l~~l~~L~~L~L~~~~  759 (863)
                      ...+ ..+..+++|+.|+|++|+
T Consensus       268 ~~~~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          268 TLLPHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             CCCCTTTTSSCTTCCEEECCSSC
T ss_pred             CccChhHhccccCCCEEEcCCCC
Confidence            4333 235677788888877765

>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=99.81  E-value=1.3e-19  Score=197.04  Aligned_cols=122  Identities=19%  Similarity=0.243  Sum_probs=102.1

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEE  583 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~  583 (863)
                      ....++.++.+|....++|++|++++|.+..++...|..+++|++|++++| .+..+ |..++++++|++|++++|.++.
T Consensus        36 c~~~~~~l~~iP~~~~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~  114 (353)
T 2z80_A           36 CKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNYLSN  114 (353)
T ss_dssp             EECCSTTCSSCCTTCCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCSS
T ss_pred             eeCCCCCcccccccccccCcEEECCCCcCcccCHHHhccCCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCCcCCc
Confidence            566677888888877788999999999888888877888999999999998 66655 5568899999999999999998


Q ss_pred             cchh-hhcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcc
Q 038405          584 LPSE-IMYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       584 lP~~-i~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~  628 (863)
                      +|.. ++++++|++|++++|. +..+|. ..+.++++|++|++++|.
T Consensus       115 ~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~~l~~L~~L~l~~n~  160 (353)
T 2z80_A          115 LSSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMD  160 (353)
T ss_dssp             CCHHHHTTCTTCSEEECTTCC-CSSSCSSCSCTTCTTCCEEEEEESS
T ss_pred             CCHhHhCCCccCCEEECCCCC-CcccCchhhhccCCCCcEEECCCCc
Confidence            8877 7889999999999987 667776 458889999999998763

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.81  E-value=7.9e-19  Score=202.71  Aligned_cols=255  Identities=20%  Similarity=0.199  Sum_probs=163.2

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~  580 (863)
                      .++.+++.++.++.+|....++|++|++++|.++.+|.    .+++|++|+|++| .++.+|.   .+++|++|++++|.
T Consensus        41 ~l~~L~ls~n~L~~lp~~l~~~L~~L~L~~N~l~~lp~----~l~~L~~L~Ls~N-~l~~lp~---~l~~L~~L~Ls~N~  112 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPA----LPPELRTLEVSGN-QLTSLPV---LPPGLLELSIFSNP  112 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCCCTTCSEEEECSCCCSCCCC----CCTTCCEEEECSC-CCSCCCC---CCTTCCEEEECSCC
T ss_pred             CCcEEEecCCCcCccChhhCCCCcEEEecCCCCCCCCC----cCCCCCEEEcCCC-cCCcCCC---CCCCCCEEECcCCc
Confidence            35677777777777777666788888888887777776    4677888888888 6777776   66778888888888


Q ss_pred             ccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEee
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL  660 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~  660 (863)
                      |+.+|.   .+++|++|++++|. +..+|..    +++|++|++++|.+..++.    ...++..|....|.+..++   
T Consensus       113 l~~l~~---~l~~L~~L~L~~N~-l~~lp~~----l~~L~~L~Ls~N~l~~l~~----~~~~L~~L~L~~N~l~~l~---  177 (622)
T 3g06_A          113 LTHLPA---LPSGLCKLWIFGNQ-LTSLPVL----PPGLQELSVSDNQLASLPA----LPSELCKLWAYNNQLTSLP---  177 (622)
T ss_dssp             CCCCCC---CCTTCCEEECCSSC-CSCCCCC----CTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSCCC---
T ss_pred             CCCCCC---CCCCcCEEECCCCC-CCcCCCC----CCCCCEEECcCCcCCCcCC----ccCCCCEEECCCCCCCCCc---
Confidence            888776   56778888888776 6666653    4778888888776654321    1233444444444443322   


Q ss_pred             cCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCC
Q 038405          661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRD  740 (863)
Q Consensus       661 ~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~  740 (863)
                                   ..+++|+.|++++|.....+.  .+++|+.|++++|.++.++.      .+++|+.|++++|.. +.
T Consensus       178 -------------~~~~~L~~L~Ls~N~l~~l~~--~~~~L~~L~L~~N~l~~l~~------~~~~L~~L~Ls~N~L-~~  235 (622)
T 3g06_A          178 -------------MLPSGLQELSVSDNQLASLPT--LPSELYKLWAYNNRLTSLPA------LPSGLKELIVSGNRL-TS  235 (622)
T ss_dssp             -------------CCCTTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSSCCC------CCTTCCEEECCSSCC-SC
T ss_pred             -------------ccCCCCcEEECCCCCCCCCCC--ccchhhEEECcCCcccccCC------CCCCCCEEEccCCcc-Cc
Confidence                         123567777777766544322  23567777777776665543      246677777777643 33


Q ss_pred             CcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCC
Q 038405          741 LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCP  816 (863)
Q Consensus       741 l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~  816 (863)
                      +|  ..+++|+.|+|++|. +..+|.            .+++|+.|+|+++ +++.++.....+++|+.|++++++
T Consensus       236 lp--~~l~~L~~L~Ls~N~-L~~lp~------------~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          236 LP--VLPSELKELMVSGNR-LTSLPM------------LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CC--CCCTTCCEEECCSSC-CSCCCC------------CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             CC--CCCCcCcEEECCCCC-CCcCCc------------ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEecCCC
Confidence            44  455677777777764 333321            4566777777665 555665555566777777776654

>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=99.80  E-value=1.1e-18  Score=183.58  Aligned_cols=219  Identities=20%  Similarity=0.221  Sum_probs=177.1

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCC-
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTS-  580 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~-  580 (863)
                      +.+...++.+..+|....++|++|++++|.+..++...|..+++|++|++++| .+..+ |..++++++|++|++++|. 
T Consensus        14 ~~~~c~~~~l~~ip~~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~   92 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQ   92 (285)
T ss_dssp             CEEECCSSCCSSCCTTCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             eEEEcCcCCcccCCcCCCCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCCC
Confidence            46777778888888777889999999999999999888999999999999999 66655 7789999999999999996 


Q ss_pred             cccc-chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          581 IEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       581 i~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      +..+ |..+..+++|++|++++|. +..++...+.++++|++|++++|.+..+....                       
T Consensus        93 l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----------------------  148 (285)
T 1ozn_A           93 LRSVDPATFHGLGRLHTLHLDRCG-LQELGPGLFRGLAALQYLYLQDNALQALPDDT-----------------------  148 (285)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT-----------------------
T ss_pred             ccccCHHHhcCCcCCCEEECCCCc-CCEECHhHhhCCcCCCEEECCCCcccccCHhH-----------------------
Confidence            8888 6679999999999999998 55665555899999999999987654322110                       


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV  737 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~  737 (863)
                                   ...+++|+.|++++|.......  +..+++|++|++++|.+.++.+.  .+..+++|+.|++++|..
T Consensus       149 -------------~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~l~~n~l  213 (285)
T 1ozn_A          149 -------------FRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPH--AFRDLGRLMTLYLFANNL  213 (285)
T ss_dssp             -------------TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTT--TTTTCTTCCEEECCSSCC
T ss_pred             -------------hccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHh--HccCcccccEeeCCCCcC
Confidence                         1234578888888887665543  78889999999999998887554  456789999999999965


Q ss_pred             CCCCc-ccccCCCcceEeeccCcch
Q 038405          738 IRDLT-WIREAPNLQFLSLVNCQAL  761 (863)
Q Consensus       738 ~~~l~-~l~~l~~L~~L~L~~~~~l  761 (863)
                      ...++ .+..+++|+.|+|++|+..
T Consensus       214 ~~~~~~~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          214 SALPTEALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             SCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             CcCCHHHcccCcccCEEeccCCCcc
Confidence            54443 4788999999999998753

>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=99.79  E-value=1e-18  Score=206.38  Aligned_cols=129  Identities=24%  Similarity=0.221  Sum_probs=112.5

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~  575 (863)
                      ..+++|.+++|.++.++...   +++|++|++++|.+..++++.|.++++|++|+|++| .++.+|. .|++|.+|++|+
T Consensus        52 ~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N-~l~~l~~~~f~~L~~L~~L~  130 (635)
T 4g8a_A           52 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLV  130 (635)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CCCEECGGGGTTCTTCCEEE
T ss_pred             cCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCC-cCCCCCHHHhcCCCCCCEEE
Confidence            47899999999999998653   899999999999999999988999999999999999 7888875 589999999999


Q ss_pred             ccCCCccccchh-hhcccCccEEecCCCCCcc-ccchhhhcCCCCCceeeccCcchh
Q 038405          576 LSNTSIEELPSE-IMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       576 L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      +++|.++.+|.. ++++++|++|++++|.... .+|.. ++.+++|++|++++|.+.
T Consensus       131 Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~-~~~l~~L~~L~L~~N~l~  186 (635)
T 4g8a_A          131 AVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKIQ  186 (635)
T ss_dssp             CTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECCSSCCC
T ss_pred             CCCCcCCCCChhhhhcCcccCeeccccCccccCCCchh-hccchhhhhhcccCcccc
Confidence            999999999875 8999999999999997322 23544 889999999999987653

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.78  E-value=2.6e-18  Score=185.07  Aligned_cols=263  Identities=19%  Similarity=0.210  Sum_probs=197.3

Q ss_pred             ccceEEEeccCCccccCCC-C--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeec
Q 038405          500 REDFRLSLWGSSIEYLPET-P--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNL  576 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~-~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L  576 (863)
                      +.++.+.+.+|.+..++.. .  +++|++|++++|.+..+++..|..+++|++|++++| .+..+|..+.  ++|++|++
T Consensus        54 ~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~--~~L~~L~l  130 (332)
T 2ft3_A           54 PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKN-HLVEIPPNLP--SSLVELRI  130 (332)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSS-CCCSCCSSCC--TTCCEEEC
T ss_pred             CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCC-cCCccCcccc--ccCCEEEC
Confidence            5789999999999988653 2  899999999999999997777999999999999999 8889998776  89999999


Q ss_pred             cCCCccccchh-hhcccCccEEecCCCCCcc-ccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          577 SNTSIEELPSE-IMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       577 ~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      ++|.+..+|.. +.++++|++|++++|.... ..+...+..+ +|++|++++|.+..+....   ...++.|....|.+.
T Consensus       131 ~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~---~~~L~~L~l~~n~i~  206 (332)
T 2ft3_A          131 HDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDL---PETLNELHLDHNKIQ  206 (332)
T ss_dssp             CSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSS---CSSCSCCBCCSSCCC
T ss_pred             CCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCccc---cCCCCEEECCCCcCC
Confidence            99999999875 8999999999999997421 1333447777 9999999999876653322   245666655555444


Q ss_pred             eeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       655 ~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      .++.            .....+++|+.|++++|......+  +..+++|++|++++|.+..++.   .+..+++|+.|++
T Consensus       207 ~~~~------------~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~---~l~~l~~L~~L~l  271 (332)
T 2ft3_A          207 AIEL------------EDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPA---GLPDLKLLQVVYL  271 (332)
T ss_dssp             CCCT------------TSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCCT---TGGGCTTCCEEEC
T ss_pred             ccCH------------HHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecCh---hhhcCccCCEEEC
Confidence            3221            123346789999999998766553  8889999999999999887755   3567999999999


Q ss_pred             ecCCCCCCCc-ccc------cCCCcceEeeccCcchh-hhhcccCCccccccCccCcccceecccccc
Q 038405          733 RVCPVIRDLT-WIR------EAPNLQFLSLVNCQALS-EIIESAGSSEVAESHNYFAYLMVIDLDSLP  792 (863)
Q Consensus       733 ~~~~~~~~l~-~l~------~l~~L~~L~L~~~~~l~-~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~  792 (863)
                      ++|......+ .+.      ..++|+.|++++|+... .++        ......+++|+.+.+.++.
T Consensus       272 ~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~--------~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          272 HTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQ--------PATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSC--------GGGGTTBCCSTTEEC----
T ss_pred             CCCCCCccChhHccccccccccccccceEeecCcccccccC--------cccccccchhhhhhccccc
Confidence            9996543321 222      25789999999998531 111        1234567778887777653

>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=99.78  E-value=1e-17  Score=180.28  Aligned_cols=240  Identities=19%  Similarity=0.189  Sum_probs=187.4

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeec
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNL  576 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L  576 (863)
                      ..++.+.+.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|++++| .+..+|..+.  ++|++|++
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~l~~~~~--~~L~~L~l  128 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN-QLKELPEKMP--KTLQELRV  128 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCSBCCSSCC--TTCCEEEC
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCC-cCCccChhhc--ccccEEEC
Confidence            47889999999999987642   899999999999999987777999999999999999 7888988765  79999999


Q ss_pred             cCCCccccchh-hhcccCccEEecCCCCCcc-ccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          577 SNTSIEELPSE-IMYLKNLKILLLDGMRHFH-LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       577 ~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~-~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      ++|.+..+|.. +.++++|++|++++|.... ..+...+.++++|++|++++|.+..+....   ...++.|....|.+.
T Consensus       129 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~---~~~L~~L~l~~n~l~  205 (330)
T 1xku_A          129 HENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL---PPSLTELHLDGNKIT  205 (330)
T ss_dssp             CSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC---CTTCSEEECTTSCCC
T ss_pred             CCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccc---cccCCEEECCCCcCC
Confidence            99999998765 8999999999999997422 133344899999999999998876543222   245555555555444


Q ss_pred             eeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       655 ~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      .+.            ......+++|+.|++++|.......  +..+++|++|++++|.+..++.   .+..+++|+.|++
T Consensus       206 ~~~------------~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~---~l~~l~~L~~L~l  270 (330)
T 1xku_A          206 KVD------------AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPG---GLADHKYIQVVYL  270 (330)
T ss_dssp             EEC------------TGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCT---TTTTCSSCCEEEC
T ss_pred             ccC------------HHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCccCCh---hhccCCCcCEEEC
Confidence            331            1123346789999999998776553  8889999999999999887754   3557899999999


Q ss_pred             ecCCCCCCCc-cc------ccCCCcceEeeccCcc
Q 038405          733 RVCPVIRDLT-WI------REAPNLQFLSLVNCQA  760 (863)
Q Consensus       733 ~~~~~~~~l~-~l------~~l~~L~~L~L~~~~~  760 (863)
                      ++|......+ .+      ...++|+.|++++|+.
T Consensus       271 ~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~  305 (330)
T 1xku_A          271 HNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPV  305 (330)
T ss_dssp             CSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             CCCcCCccChhhcCCcccccccccccceEeecCcc
Confidence            9996543321 12      2358899999999974

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

Probab=99.77  E-value=5.5e-18  Score=190.12  Aligned_cols=243  Identities=18%  Similarity=0.192  Sum_probs=188.3

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccccc-hhhhcccCccEEec
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEELP-SEIMYLKNLKILLL  599 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP-~~i~~L~~L~~L~l  599 (863)
                      ..+.++..+..+..+|..+   .+++++|+|++| .+..++ ..+.++++|++|+|++|.|..++ ..+.++++|++|++
T Consensus        44 ~~~~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           44 QFSKVICVRKNLREVPDGI---STNTRLLNLHEN-QIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLEL  119 (440)
T ss_dssp             TSCEEECCSCCCSSCCSCC---CTTCSEEECCSC-CCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEEC
T ss_pred             CCCEEEeCCCCcCcCCCCC---CCCCcEEEccCC-cCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEEC
Confidence            4567777788899999763   378999999999 666654 68999999999999999999887 56899999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhc-ccceeeEEeecCchhhhhhhcccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLG-NQIYEISITLGSASALFKINFSWKLCSC  678 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~-n~L~~l~~~~~~~~~l~~l~~~~~~~~~  678 (863)
                      ++|. +..+|.+.+..+++|++|++++|.+..+....+....+|+.|.... +.+..++            ......+++
T Consensus       120 ~~n~-l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~------------~~~~~~l~~  186 (440)
T 3zyj_A          120 FDNR-LTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYIS------------EGAFEGLSN  186 (440)
T ss_dssp             CSSC-CSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEEC------------TTTTTTCSS
T ss_pred             CCCc-CCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeC------------cchhhcccc
Confidence            9997 7788887799999999999999988766554444444454444333 1222111            012345678


Q ss_pred             ccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeecc
Q 038405          679 IKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVN  757 (863)
Q Consensus       679 L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~  757 (863)
                      |+.|++++|.....+.+..+++|++|++++|.+..+.+.  .+..+++|+.|++++|...... ..+..+++|+.|+|++
T Consensus       187 L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~--~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  264 (440)
T 3zyj_A          187 LRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPG--SFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAH  264 (440)
T ss_dssp             CCEEECTTSCCSSCCCCTTCSSCCEEECTTSCCCEECTT--TTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTT
T ss_pred             cCeecCCCCcCccccccCCCcccCEEECCCCccCccChh--hhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCC
Confidence            999999999888777789999999999999998888654  5678999999999999654433 4578899999999999


Q ss_pred             CcchhhhhcccCCccccccCccCcccceecccccc
Q 038405          758 CQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP  792 (863)
Q Consensus       758 ~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~  792 (863)
                      |.. ..++.        .....+++|+.|+|++.|
T Consensus       265 N~l-~~~~~--------~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          265 NNL-TLLPH--------DLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             SCC-CCCCT--------TTTSSCTTCCEEECCSSC
T ss_pred             CCC-CccCh--------hHhccccCCCEEEcCCCC
Confidence            974 44432        234568899999998654

>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=99.76  E-value=6.2e-19  Score=191.78  Aligned_cols=246  Identities=20%  Similarity=0.266  Sum_probs=173.7

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      +.++.+.+.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|++++| .+..+|.. ++++++|++|+
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~  130 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLN  130 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSSCCHHHHTTCTTCSEEE
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCC-cCCcCCHhHhCCCccCCEEE
Confidence            47899999999999988732   999999999999999998888999999999999999 78888876 89999999999


Q ss_pred             ccCCCccccch--hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccc
Q 038405          576 LSNTSIEELPS--EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI  653 (863)
Q Consensus       576 L~~~~i~~lP~--~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L  653 (863)
                      +++|.+..+|.  .+.++++|++|++++|..+..++...++++++|++|++++|.+....+...                
T Consensus       131 L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l----------------  194 (353)
T 2z80_A          131 LLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSL----------------  194 (353)
T ss_dssp             CTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTT----------------
T ss_pred             CCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHH----------------
Confidence            99999999997  689999999999999966777776669999999999999876544322211                


Q ss_pred             eeeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCC-CCCCCCCCCCEE
Q 038405          654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTF-NGWTNFHNLHHL  730 (863)
Q Consensus       654 ~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~-~~~~~l~~L~~L  730 (863)
                                          ..+++|+.|++++|.......  +..+++|+.|++++|.+.+.++.. ......+.++.+
T Consensus       195 --------------------~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l  254 (353)
T 2z80_A          195 --------------------KSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKF  254 (353)
T ss_dssp             --------------------TTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEE
T ss_pred             --------------------hccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhcc
Confidence                                123355566666655433322  344566777777777665543211 011234556666


Q ss_pred             EEecCCCCCC-----CcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          731 SIRVCPVIRD-----LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       731 ~L~~~~~~~~-----l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      ++.++.....     +.++..+++|+.|+|++|.. ..+|.        .....+++|+.|+++++
T Consensus       255 ~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l-~~i~~--------~~~~~l~~L~~L~L~~N  311 (353)
T 2z80_A          255 TFRNVKITDESLFQVMKLLNQISGLLELEFSRNQL-KSVPD--------GIFDRLTSLQKIWLHTN  311 (353)
T ss_dssp             EEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCC-CCCCT--------TTTTTCTTCCEEECCSS
T ss_pred             ccccccccCcchhhhHHHHhcccCCCEEECCCCCC-CccCH--------HHHhcCCCCCEEEeeCC
Confidence            6666643221     12355667777777776653 33332        11245666777776654

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

Probab=99.76  E-value=8.1e-19  Score=198.70  Aligned_cols=218  Identities=17%  Similarity=0.142  Sum_probs=135.0

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|++++|.+..+++..|..+++|++|+|++| .+...++ ++.+++|++|+|++|.|..+|.    .++|++|++
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 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN-VLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLHA  106 (487)
T ss_dssp             GGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTS-CCEEEEE-CTTCTTCCEEECCSSEEEEEEE----CTTCCEEEC
T ss_pred             CCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCC-CCCCCcc-cccCCCCCEEEecCCcCCCCCC----CCCcCEEEC
Confidence            457888888888888887777888888888888888 5665554 8888888888888888887774    378888888


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|..   .+++|++|++++|.+....+........|+.|....|.+.....        ..   ....+++|
T Consensus       107 ~~N~-l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--------~~---l~~~l~~L  171 (487)
T 3oja_A          107 ANNN-ISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNF--------AE---LAASSDTL  171 (487)
T ss_dssp             CSSC-CCCEEEC---CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEG--------GG---GGGGTTTC
T ss_pred             cCCc-CCCCCcc---ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcCh--------HH---HhhhCCcc
Confidence            8887 5555543   46788888888877655433333233333333333333322110        00   00123456


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      +.|++++|......+...+++|+.|++++|.++++++   .+..+++|+.|++++|.....++.+..+++|+.|++++|.
T Consensus       172 ~~L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~---~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          172 EHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGP---EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             CEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECG---GGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             cEEecCCCccccccccccCCCCCEEECCCCCCCCCCH---hHcCCCCccEEEecCCcCcccchhhccCCCCCEEEcCCCC
Confidence            6666666655544444455666666666666655544   2335566666666666444333445556666666666665


Q ss_pred             ch
Q 038405          760 AL  761 (863)
Q Consensus       760 ~l  761 (863)
                      ..
T Consensus       249 l~  250 (487)
T 3oja_A          249 FH  250 (487)
T ss_dssp             BC
T ss_pred             Cc
Confidence            43

>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=99.76  E-value=2.6e-18  Score=202.84  Aligned_cols=127  Identities=19%  Similarity=0.186  Sum_probs=111.8

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCcc
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIE  582 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~  582 (863)
                      .++-.+..+..+|....+++++|+|++|.++.+|+..|.++++|++|+|++| .+..+|+ .|++|++|++|+|++|+|+
T Consensus        35 ~~~c~~~~l~~vP~~lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N-~i~~i~~~~f~~L~~L~~L~Ls~N~l~  113 (635)
T 4g8a_A           35 TYQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQ  113 (635)
T ss_dssp             EEECTTSCCSSCCSSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCC
T ss_pred             EEECCCCCcCccCCCCCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCC-cCCCcChhHhcCCCCCCEEEccCCcCC
Confidence            3444555677888777789999999999999999988999999999999999 7887765 6899999999999999999


Q ss_pred             ccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhh
Q 038405          583 ELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       583 ~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      .+|.. +.+|++|++|++++|. +..+|...|+++++|++|++++|.+...
T Consensus       114 ~l~~~~f~~L~~L~~L~Ls~N~-l~~l~~~~~~~L~~L~~L~Ls~N~l~~~  163 (635)
T 4g8a_A          114 SLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVAHNLIQSF  163 (635)
T ss_dssp             EECGGGGTTCTTCCEEECTTSC-CCCSTTCCCTTCTTCCEEECCSSCCCCC
T ss_pred             CCCHHHhcCCCCCCEEECCCCc-CCCCChhhhhcCcccCeeccccCccccC
Confidence            99865 7999999999999997 7788877799999999999999886543

>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=99.76  E-value=8.1e-18  Score=188.53  Aligned_cols=269  Identities=20%  Similarity=0.183  Sum_probs=138.2

Q ss_pred             ccceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          500 REDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      ..++.+.+.+|.+..+|.. +++|++|++++|.+..++..    .++|++|++++| .+..+| .++++++|++|++++|
T Consensus        91 ~~L~~L~l~~n~l~~lp~~-~~~L~~L~l~~n~l~~l~~~----~~~L~~L~L~~n-~l~~lp-~~~~l~~L~~L~l~~N  163 (454)
T 1jl5_A           91 PHLESLVASCNSLTELPEL-PQSLKSLLVDNNNLKALSDL----PPLLEYLGVSNN-QLEKLP-ELQNSSFLKIIDVDNN  163 (454)
T ss_dssp             TTCSEEECCSSCCSSCCCC-CTTCCEEECCSSCCSCCCSC----CTTCCEEECCSS-CCSSCC-CCTTCTTCCEEECCSS
T ss_pred             CCCCEEEccCCcCCccccc-cCCCcEEECCCCccCcccCC----CCCCCEEECcCC-CCCCCc-ccCCCCCCCEEECCCC
Confidence            3566777777776665532 46677777777766655431    256777777777 556666 4677777777777777


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      .++.+|..+   .+|++|++++|. +..+| . ++++++|++|++++|.+.++...    ...++.|....|.+..++ .
T Consensus       164 ~l~~lp~~~---~~L~~L~L~~n~-l~~l~-~-~~~l~~L~~L~l~~N~l~~l~~~----~~~L~~L~l~~n~l~~lp-~  232 (454)
T 1jl5_A          164 SLKKLPDLP---PSLEFIAAGNNQ-LEELP-E-LQNLPFLTAIYADNNSLKKLPDL----PLSLESIVAGNNILEELP-E  232 (454)
T ss_dssp             CCSCCCCCC---TTCCEEECCSSC-CSSCC-C-CTTCTTCCEEECCSSCCSSCCCC----CTTCCEEECCSSCCSSCC-C
T ss_pred             cCcccCCCc---ccccEEECcCCc-CCcCc-c-ccCCCCCCEEECCCCcCCcCCCC----cCcccEEECcCCcCCccc-c
Confidence            776666543   367777777765 45565 3 66777777777776665443211    123444444343333322 1


Q ss_pred             ecCchhhhhhhcccc-------ccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          660 LGSASALFKINFSWK-------LCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~-------~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      +..++.++.+..+.+       ..++|+.|++++|.....+.  .+++|++|++++|.+.+++..      .++|+.|++
T Consensus       233 ~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~N~l~~l~~--~~~~L~~L~ls~N~l~~l~~~------~~~L~~L~l  304 (454)
T 1jl5_A          233 LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPE--LPQSLTFLDVSENIFSGLSEL------PPNLYYLNA  304 (454)
T ss_dssp             CTTCTTCCEEECCSSCCSSCCSCCTTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSEESCC------CTTCCEEEC
T ss_pred             cCCCCCCCEEECCCCcCCcccccccccCEEECCCCcccccCc--ccCcCCEEECcCCccCcccCc------CCcCCEEEC
Confidence            222111111111110       12345555555554433221  124555555555555443221      234555555


Q ss_pred             ecCCCCCCCcccccC-CCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEe
Q 038405          733 RVCPVIRDLTWIREA-PNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVS  811 (863)
Q Consensus       733 ~~~~~~~~l~~l~~l-~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~  811 (863)
                      ++|... .   +..+ ++|+.|++++|.. ..+|.            .+++|+.|+++++ .++.++.   .+++|+.|+
T Consensus       305 ~~N~l~-~---i~~~~~~L~~L~Ls~N~l-~~lp~------------~~~~L~~L~L~~N-~l~~lp~---~l~~L~~L~  363 (454)
T 1jl5_A          305 SSNEIR-S---LCDLPPSLEELNVSNNKL-IELPA------------LPPRLERLIASFN-HLAEVPE---LPQNLKQLH  363 (454)
T ss_dssp             CSSCCS-E---ECCCCTTCCEEECCSSCC-SCCCC------------CCTTCCEEECCSS-CCSCCCC---CCTTCCEEE
T ss_pred             cCCcCC-c---ccCCcCcCCEEECCCCcc-ccccc------------cCCcCCEEECCCC-ccccccc---hhhhccEEE
Confidence            554321 1   1122 3566666665542 22221            2456666666654 3444443   355666666


Q ss_pred             eccC
Q 038405          812 VTNC  815 (863)
Q Consensus       812 i~~C  815 (863)
                      ++++
T Consensus       364 L~~N  367 (454)
T 1jl5_A          364 VEYN  367 (454)
T ss_dssp             CCSS
T ss_pred             CCCC
Confidence            6654

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

Probab=99.75  E-value=6.5e-18  Score=179.79  Aligned_cols=241  Identities=19%  Similarity=0.213  Sum_probs=183.8

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCCcccc---chhhhcccCccEEec
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSIEEL---PSEIMYLKNLKILLL  599 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~i~~l---P~~i~~L~~L~~L~l  599 (863)
                      +.+...++.++.+|..+   .++|++|++++| .+..+|.. ++++++|++|++++|.+..+   |..+..+++|++|++
T Consensus        10 ~~l~c~~~~l~~ip~~~---~~~l~~L~L~~n-~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L   85 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGI---PSSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL   85 (306)
T ss_dssp             TEEECCSSCCSSCCSCC---CTTCCEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEEC
T ss_pred             CEEEcCCCCcccCCCCC---CCCCCEEECCCC-ccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEEC
Confidence            56777888888998753   368999999999 78888875 68999999999999998866   678888999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|.. +..+++|++|++++|.+.......                                   ....+++|
T Consensus        86 s~n~-i~~l~~~-~~~l~~L~~L~l~~n~l~~~~~~~-----------------------------------~~~~l~~L  128 (306)
T 2z66_A           86 SFNG-VITMSSN-FLGLEQLEHLDFQHSNLKQMSEFS-----------------------------------VFLSLRNL  128 (306)
T ss_dssp             CSCS-EEEEEEE-EETCTTCCEEECTTSEEESSTTTT-----------------------------------TTTTCTTC
T ss_pred             CCCc-cccChhh-cCCCCCCCEEECCCCcccccccch-----------------------------------hhhhccCC
Confidence            9997 7778877 889999999999987654322100                                   11234578


Q ss_pred             cEEEecccCCccccc--ccccCCcceeEeccCcccc-cCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEee
Q 038405          680 KRLTIMHNLDSHSID--LRNMMHLETLNIVECSLER-VDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSL  755 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~-~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L  755 (863)
                      +.|++++|.......  +..+++|++|++++|.+.+ ..+.  .+..+++|+.|++++|...... ..+..+++|+.|+|
T Consensus       129 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~--~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  206 (306)
T 2z66_A          129 IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD--IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM  206 (306)
T ss_dssp             CEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECS--CCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchh--HHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEEC
Confidence            889999887655443  7889999999999999876 2222  4567899999999999765543 46889999999999


Q ss_pred             ccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCC-CccEEeeccCC
Q 038405          756 VNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFP-SLQNVSVTNCP  816 (863)
Q Consensus       756 ~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~-~L~~L~i~~C~  816 (863)
                      ++|... .++.        .....+++|+.|+++++.--...+.....+| +|+.|++++++
T Consensus       207 ~~N~l~-~~~~--------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          207 SHNNFF-SLDT--------FPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             TTSCCS-BCCS--------GGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCC
T ss_pred             CCCccC-ccCh--------hhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCC
Confidence            999743 3221        2346789999999998743333333444554 78888877654

>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=99.75  E-value=3.6e-18  Score=191.38  Aligned_cols=266  Identities=19%  Similarity=0.158  Sum_probs=158.2

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~  603 (863)
                      +.|++++|.+..+|.    -.++|++|++++| .+..+|..   +.+|++|++++|.+..+|..   .++|++|++++|.
T Consensus        74 ~~L~l~~~~l~~lp~----~~~~L~~L~l~~n-~l~~lp~~---~~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n~  142 (454)
T 1jl5_A           74 HELELNNLGLSSLPE----LPPHLESLVASCN-SLTELPEL---PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNNQ  142 (454)
T ss_dssp             SEEECTTSCCSCCCS----CCTTCSEEECCSS-CCSSCCCC---CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSSC
T ss_pred             CEEEecCCccccCCC----CcCCCCEEEccCC-cCCccccc---cCCCcEEECCCCccCcccCC---CCCCCEEECcCCC
Confidence            555666555555554    1356777777777 55556643   35677777777776666542   2578888888886


Q ss_pred             CccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccc-------c
Q 038405          604 HFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKL-------C  676 (863)
Q Consensus       604 ~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~-------~  676 (863)
                       +..+| . ++++++|++|++++|.+..++.    ....++.|....|.+..++ .+..++.++.+..+.+.       .
T Consensus       143 -l~~lp-~-~~~l~~L~~L~l~~N~l~~lp~----~~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~~~  214 (454)
T 1jl5_A          143 -LEKLP-E-LQNSSFLKIIDVDNNSLKKLPD----LPPSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPDLP  214 (454)
T ss_dssp             -CSSCC-C-CTTCTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCCCC
T ss_pred             -CCCCc-c-cCCCCCCCEEECCCCcCcccCC----CcccccEEECcCCcCCcCc-cccCCCCCCEEECCCCcCCcCCCCc
Confidence             55677 3 7888888888888887665322    1235666666666665554 34444444433333221       2


Q ss_pred             ccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeec
Q 038405          677 SCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLV  756 (863)
Q Consensus       677 ~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~  756 (863)
                      ++|+.|++++|.....+.+..+++|++|++++|.+.+++.      .+++|+.|++++|.... ++.  .+++|+.|+++
T Consensus       215 ~~L~~L~l~~n~l~~lp~~~~l~~L~~L~l~~N~l~~l~~------~~~~L~~L~l~~N~l~~-l~~--~~~~L~~L~ls  285 (454)
T 1jl5_A          215 LSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPD------LPPSLEALNVRDNYLTD-LPE--LPQSLTFLDVS  285 (454)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCS------CCTTCCEEECCSSCCSC-CCC--CCTTCCEEECC
T ss_pred             CcccEEECcCCcCCcccccCCCCCCCEEECCCCcCCcccc------cccccCEEECCCCcccc-cCc--ccCcCCEEECc
Confidence            3677888887766654457777888888888887776543      24677888887775433 332  23677777777


Q ss_pred             cCcchhhhhccc-CCccccc------cCccC-cccceecccccccccccccCccCCCCccEEeeccCCCCCCCCC
Q 038405          757 NCQALSEIIESA-GSSEVAE------SHNYF-AYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPF  823 (863)
Q Consensus       757 ~~~~l~~i~~~~-~~~~~~~------~~~~~-~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~  823 (863)
                      +|... .++... ....+..      ....+ ++|+.|+++++ +++.++.   .+++|+.|++++| +++.+|.
T Consensus       286 ~N~l~-~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~Ls~N-~l~~lp~---~~~~L~~L~L~~N-~l~~lp~  354 (454)
T 1jl5_A          286 ENIFS-GLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPA---LPPRLERLIASFN-HLAEVPE  354 (454)
T ss_dssp             SSCCS-EESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCSCCCC
T ss_pred             CCccC-cccCcCCcCCEEECcCCcCCcccCCcCcCCEEECCCC-ccccccc---cCCcCCEEECCCC-ccccccc
Confidence            77532 221100 0000000      01122 46777777764 3444433   2578899998876 5666664

>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=99.75  E-value=8.5e-18  Score=189.27  Aligned_cols=222  Identities=25%  Similarity=0.290  Sum_probs=183.3

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      ..++.|.+.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. ++++++|++|+
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  153 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELW  153 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSBCCTTTSSSCTTCCEEE
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCC-cCCccChhhhcccCCCCEEE
Confidence            57899999999999885543   899999999999999999888999999999999999 77777764 88999999999


Q ss_pred             ccCCCccccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccce
Q 038405          576 LSNTSIEELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIY  654 (863)
Q Consensus       576 L~~~~i~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~  654 (863)
                      |++|.|..+|. .+.++++|++|++++|..+..+|...+.++++|++|++++|.+..+.  ......+|+.|....|.+.
T Consensus       154 L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~--~~~~l~~L~~L~Ls~N~l~  231 (452)
T 3zyi_A          154 LRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP--NLTPLVGLEELEMSGNHFP  231 (452)
T ss_dssp             CCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCC--CCTTCTTCCEEECTTSCCS
T ss_pred             CCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccc--cccccccccEEECcCCcCc
Confidence            99999999987 58999999999999988899999888999999999999999876553  2224455556655555554


Q ss_pred             eeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEE
Q 038405          655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSI  732 (863)
Q Consensus       655 ~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L  732 (863)
                      .+.            ......+++|+.|++++|.......  +..+++|+.|++++|.++.+++.  .+..+++|+.|+|
T Consensus       232 ~~~------------~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~L  297 (452)
T 3zyi_A          232 EIR------------PGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHD--LFTPLRYLVELHL  297 (452)
T ss_dssp             EEC------------GGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTT--SSTTCTTCCEEEC
T ss_pred             ccC------------cccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccChH--HhccccCCCEEEc
Confidence            332            1223456789999999998776543  88899999999999999887654  4567899999999


Q ss_pred             ecCCCC
Q 038405          733 RVCPVI  738 (863)
Q Consensus       733 ~~~~~~  738 (863)
                      ++|+..
T Consensus       298 ~~Np~~  303 (452)
T 3zyi_A          298 HHNPWN  303 (452)
T ss_dssp             CSSCEE
T ss_pred             cCCCcC
Confidence            999753

>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=99.75  E-value=4.5e-18  Score=178.96  Aligned_cols=203  Identities=24%  Similarity=0.344  Sum_probs=166.4

Q ss_pred             cccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhccccccee
Q 038405          499 WREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCL  574 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L  574 (863)
                      ...++++.+.++.+..++...   +++|++|++++|.+..+++..|..+++|++|++++|..+..+ |..+..+++|++|
T Consensus        31 ~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L  110 (285)
T 1ozn_A           31 PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTL  110 (285)
T ss_dssp             CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEE
T ss_pred             CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEE
Confidence            458899999999999988543   899999999999999987777999999999999999537766 7789999999999


Q ss_pred             eccCCCcccc-chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccc
Q 038405          575 NLSNTSIEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI  653 (863)
Q Consensus       575 ~L~~~~i~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L  653 (863)
                      ++++|.+..+ |..+.++++|++|++++|. +..+|...++++++|++|++++|.+..+....                 
T Consensus       111 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----------------  172 (285)
T 1ozn_A          111 HLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRISSVPERA-----------------  172 (285)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCEECTTT-----------------
T ss_pred             ECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCcccccCHHH-----------------
Confidence            9999999988 5568999999999999998 67777776899999999999987654322111                 


Q ss_pred             eeeEEeecCchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEE
Q 038405          654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS  731 (863)
Q Consensus       654 ~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~  731 (863)
                                         ...+++|+.|++++|......+  +..+++|+.|++++|.+.++++.  .+..+++|+.|+
T Consensus       173 -------------------~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~--~~~~l~~L~~L~  231 (285)
T 1ozn_A          173 -------------------FRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE--ALAPLRALQYLR  231 (285)
T ss_dssp             -------------------TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHH--HHTTCTTCCEEE
T ss_pred             -------------------hcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCCHH--HcccCcccCEEe
Confidence                               1224578888888887765533  88899999999999998877542  345789999999


Q ss_pred             EecCCCCCC
Q 038405          732 IRVCPVIRD  740 (863)
Q Consensus       732 L~~~~~~~~  740 (863)
                      +++|+...+
T Consensus       232 l~~N~~~c~  240 (285)
T 1ozn_A          232 LNDNPWVCD  240 (285)
T ss_dssp             CCSSCEECS
T ss_pred             ccCCCccCC
Confidence            999976443

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

Probab=99.75  E-value=4.4e-19  Score=189.63  Aligned_cols=264  Identities=19%  Similarity=0.087  Sum_probs=196.3

Q ss_pred             ccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccccchhhhcccCccEEecCC
Q 038405          523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG  601 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~  601 (863)
                      ++.+++..+.+...+...+..+++|++|+|++| .+..+ |..++++++|++|++++|.+..+++ +..+++|++|++++
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~   89 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNN   89 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTS-CCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCS
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCC-ccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcC
Confidence            455566666677777777888899999999999 66655 4689999999999999999998876 99999999999999


Q ss_pred             CCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccE
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKR  681 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~  681 (863)
                      |. +..+|     .+++|++|++++|.+.......   ...++.|....|.+..          +.  ......+++|+.
T Consensus        90 n~-l~~l~-----~~~~L~~L~l~~n~l~~~~~~~---~~~L~~L~l~~N~l~~----------~~--~~~~~~l~~L~~  148 (317)
T 3o53_A           90 NY-VQELL-----VGPSIETLHAANNNISRVSCSR---GQGKKNIYLANNKITM----------LR--DLDEGCRSRVQY  148 (317)
T ss_dssp             SE-EEEEE-----ECTTCCEEECCSSCCSEEEECC---CSSCEEEECCSSCCCS----------GG--GBCTGGGSSEEE
T ss_pred             Cc-ccccc-----CCCCcCEEECCCCccCCcCccc---cCCCCEEECCCCCCCC----------cc--chhhhccCCCCE
Confidence            97 66555     3489999999999876654332   2334444444433322          11  122344678999


Q ss_pred             EEecccCCccccc--c-cccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccC
Q 038405          682 LTIMHNLDSHSID--L-RNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNC  758 (863)
Q Consensus       682 L~l~~~~~~~~~~--l-~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~  758 (863)
                      |++++|.......  + ..+++|++|++++|.++.++..    ..+++|+.|++++|.....++.+..+++|+.|+|++|
T Consensus       149 L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~----~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N  224 (317)
T 3o53_A          149 LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQ----VVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN  224 (317)
T ss_dssp             EECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECC----CCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTS
T ss_pred             EECCCCCCCcccHHHHhhccCcCCEEECCCCcCcccccc----cccccCCEEECCCCcCCcchhhhcccCcccEEECcCC
Confidence            9999998766442  3 4689999999999998887443    2589999999999976555566888999999999999


Q ss_pred             cchhhhhcccCCccccccCccCcccceecccccccc-cccccCccCCCCccEEeeccCCCCCCCCC
Q 038405          759 QALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSL-KRICHGTMPFPSLQNVSVTNCPNLRELPF  823 (863)
Q Consensus       759 ~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L-~~l~~~~~~~~~L~~L~i~~C~~L~~lp~  823 (863)
                      .. ..+|.         ....+++|+.|++++++-. ..++.....++.|+.+.+.+|+.++..+.
T Consensus       225 ~l-~~l~~---------~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~~~~l~~~~~  280 (317)
T 3o53_A          225 KL-VLIEK---------ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNE  280 (317)
T ss_dssp             CC-CEECT---------TCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHHHHHHHSSSS
T ss_pred             cc-cchhh---------HhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCCchhccCCch
Confidence            74 44543         3466889999999986544 23444445678888888888877776544

>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=99.75  E-value=1.5e-17  Score=174.88  Aligned_cols=130  Identities=22%  Similarity=0.232  Sum_probs=110.7

Q ss_pred             ccccceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeecc
Q 038405          498 SWREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLS  577 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~  577 (863)
                      ....++.+.+.++.++.+|....+++++|++++|.+..++...|..+++|++|+|++| .+..+|.. +.+++|++|+++
T Consensus         8 ~l~~l~~l~~~~~~l~~ip~~~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~-~~l~~L~~L~Ls   85 (290)
T 1p9a_G            8 KVASHLEVNCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD-GTLPVLGTLDLS   85 (290)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEECC-SCCTTCCEEECC
T ss_pred             ccCCccEEECCCCCCCcCCCCCCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCC-ccCcccCC-CCCCcCCEEECC
Confidence            3456778888888888888777889999999999888888777889999999999999 77777764 788999999999


Q ss_pred             CCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          578 NTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       578 ~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      +|.+..+|..+..+++|++|++++|. +..+|.+.|.++++|++|++++|.+.
T Consensus        86 ~N~l~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~l~~L~~L~L~~N~l~  137 (290)
T 1p9a_G           86 HNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNELK  137 (290)
T ss_dssp             SSCCSSCCCCTTTCTTCCEEECCSSC-CCCCCSSTTTTCTTCCEEECTTSCCC
T ss_pred             CCcCCcCchhhccCCCCCEEECCCCc-CcccCHHHHcCCCCCCEEECCCCCCC
Confidence            99999999888999999999999987 67777666889999999999877543

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

Probab=99.74  E-value=3.6e-17  Score=170.46  Aligned_cols=197  Identities=24%  Similarity=0.320  Sum_probs=126.7

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNT  579 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~  579 (863)
                      ..+.+.+.++.+..+|....++++.|++++|.+..++...|..+++|++|++++| .+..+|.. +.++++|++|++++|
T Consensus        17 ~~~~l~~~~~~l~~ip~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~i~~~~~~~l~~L~~L~l~~n   95 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDN-KLQTLPAGIFKELKNLETLWVTDN   95 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCCCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSS-CCSCCCTTTTSSCTTCCEEECCSS
T ss_pred             CCCEEEccCCCCCccCCCCCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCC-ccCeeChhhhcCCCCCCEEECCCC
Confidence            3456777777777777666677788888877777777766777788888888777 66666654 367777888888887


Q ss_pred             Cccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEE
Q 038405          580 SIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISI  658 (863)
Q Consensus       580 ~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~  658 (863)
                      .+..+|.. +..+++|++|++++|. +..+|...++++++|++|++++|.+..+...                       
T Consensus        96 ~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-----------------------  151 (270)
T 2o6q_A           96 KLQALPIGVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYNELQSLPKG-----------------------  151 (270)
T ss_dssp             CCCCCCTTTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-----------------------
T ss_pred             cCCcCCHhHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCCcCCccCHh-----------------------
Confidence            77777654 5677778888887776 5556655567777777777776543211100                       


Q ss_pred             eecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCC
Q 038405          659 TLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVI  738 (863)
Q Consensus       659 ~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~  738 (863)
                                                         .+..+++|++|++++|.+..+++.  .+..+++|+.|++++|...
T Consensus       152 -----------------------------------~~~~l~~L~~L~L~~n~l~~~~~~--~~~~l~~L~~L~L~~N~l~  194 (270)
T 2o6q_A          152 -----------------------------------VFDKLTSLKELRLYNNQLKRVPEG--AFDKLTELKTLKLDNNQLK  194 (270)
T ss_dssp             -----------------------------------TTTTCTTCCEEECCSSCCSCCCTT--TTTTCTTCCEEECCSSCCS
T ss_pred             -----------------------------------HccCCcccceeEecCCcCcEeChh--HhccCCCcCEEECCCCcCC
Confidence                                               034455666666666665555432  2345566666666666433


Q ss_pred             CCCc-ccccCCCcceEeeccCc
Q 038405          739 RDLT-WIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       739 ~~l~-~l~~l~~L~~L~L~~~~  759 (863)
                      ..++ .+..+++|+.|+|++|+
T Consensus       195 ~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          195 RVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCHHHhccccCCCEEEecCCC
Confidence            2222 25556666666666654

>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=99.72  E-value=8.5e-17  Score=185.76  Aligned_cols=235  Identities=22%  Similarity=0.164  Sum_probs=179.5

Q ss_pred             ccceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCC
Q 038405          500 REDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNT  579 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~  579 (863)
                      .+++.|.+.+|.++.+|. .+++|++|++++|.+..+|.    .+++|++|++++| .+..+|.   .+.+|++|++++|
T Consensus        61 ~~L~~L~L~~N~l~~lp~-~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~N-~l~~l~~---~l~~L~~L~L~~N  131 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA-LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFSN-PLTHLPA---LPSGLCKLWIFGN  131 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC-CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECSC-CCCCCCC---CCTTCCEEECCSS
T ss_pred             CCCcEEEecCCCCCCCCC-cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcCC-cCCCCCC---CCCCcCEEECCCC
Confidence            588999999999998887 58999999999999998887    6799999999999 8888887   6789999999999


Q ss_pred             CccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEe
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT  659 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~  659 (863)
                      .++.+|..   +++|++|++++|. +..+|.    .+.+|+.|++++|.+..++    ....+|+.|....|.+..++. 
T Consensus       132 ~l~~lp~~---l~~L~~L~Ls~N~-l~~l~~----~~~~L~~L~L~~N~l~~l~----~~~~~L~~L~Ls~N~l~~l~~-  198 (622)
T 3g06_A          132 QLTSLPVL---PPGLQELSVSDNQ-LASLPA----LPSELCKLWAYNNQLTSLP----MLPSGLQELSVSDNQLASLPT-  198 (622)
T ss_dssp             CCSCCCCC---CTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSSCCSCCC----CCCTTCCEEECCSSCCSCCCC-
T ss_pred             CCCcCCCC---CCCCCEEECcCCc-CCCcCC----ccCCCCEEECCCCCCCCCc----ccCCCCcEEECCCCCCCCCCC-
Confidence            99999975   4899999999997 667775    3568899999998876553    133455555555554443221 


Q ss_pred             ecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCC
Q 038405          660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR  739 (863)
Q Consensus       660 ~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~  739 (863)
                                     ..++|+.|++++|.......  .+++|+.|++++|.++.++.      .+++|+.|++++|. ++
T Consensus       199 ---------------~~~~L~~L~L~~N~l~~l~~--~~~~L~~L~Ls~N~L~~lp~------~l~~L~~L~Ls~N~-L~  254 (622)
T 3g06_A          199 ---------------LPSELYKLWAYNNRLTSLPA--LPSGLKELIVSGNRLTSLPV------LPSELKELMVSGNR-LT  254 (622)
T ss_dssp             ---------------CCTTCCEEECCSSCCSSCCC--CCTTCCEEECCSSCCSCCCC------CCTTCCEEECCSSC-CS
T ss_pred             ---------------ccchhhEEECcCCcccccCC--CCCCCCEEEccCCccCcCCC------CCCcCcEEECCCCC-CC
Confidence                           23578888888887654432  34788888888888877652      46788888888884 44


Q ss_pred             CCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccc
Q 038405          740 DLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP  792 (863)
Q Consensus       740 ~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~  792 (863)
                      .+|.  .+++|+.|+|++|.. ..+|.         ....+++|+.|+|++++
T Consensus       255 ~lp~--~~~~L~~L~Ls~N~L-~~lp~---------~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          255 SLPM--LPSGLLSLSVYRNQL-TRLPE---------SLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CCCC--CCTTCCEEECCSSCC-CSCCG---------GGGGSCTTCEEECCSCC
T ss_pred             cCCc--ccccCcEEeCCCCCC-CcCCH---------HHhhccccCEEEecCCC
Confidence            5554  678888888888863 45543         34568888888888764

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.71  E-value=2e-17  Score=172.56  Aligned_cols=198  Identities=18%  Similarity=0.261  Sum_probs=127.0

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchh-hhcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~  598 (863)
                      +++|+.|.+.+|.+..++.  +..+++|++|++++| .+..++ .++++++|++|++++|.+..+|.. ++++++|++|+
T Consensus        40 l~~L~~L~l~~~~i~~~~~--l~~l~~L~~L~l~~n-~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  115 (272)
T 3rfs_A           40 LNSIDQIIANNSDIKSVQG--IQYLPNVRYLALGGN-KLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELV  115 (272)
T ss_dssp             HTTCCEEECTTSCCCCCTT--GGGCTTCCEEECTTS-CCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             ccceeeeeeCCCCcccccc--cccCCCCcEEECCCC-CCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEE
Confidence            6677777777777766654  667778888888877 566654 577777888888888877777655 57777888888


Q ss_pred             cCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccc
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSC  678 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~  678 (863)
                      +++|. +..+|...++++++|++|++++|.+..+.+..                                    ...+++
T Consensus       116 L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~------------------------------------~~~l~~  158 (272)
T 3rfs_A          116 LVENQ-LQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGV------------------------------------FDKLTN  158 (272)
T ss_dssp             CTTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT------------------------------------TTTCTT
T ss_pred             CCCCc-CCccCHHHhccCCCCCEEECCCCccCccCHHH------------------------------------hccCcc
Confidence            87776 55666655677777888877766543221100                                    012335


Q ss_pred             ccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeec
Q 038405          679 IKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLV  756 (863)
Q Consensus       679 L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~  756 (863)
                      |+.|++++|......+  +..+++|++|++++|.+.++++.  .+..+++|+.|++++|+.      .+.+|+|+.|.++
T Consensus       159 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~l~~N~~------~~~~~~l~~l~~~  230 (272)
T 3rfs_A          159 LTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDG--VFDRLTSLQYIWLHDNPW------DCTCPGIRYLSEW  230 (272)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT--TTTTCTTCCEEECCSSCB------CCCTTTTHHHHHH
T ss_pred             CCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHH--HHhCCcCCCEEEccCCCc------cccCcHHHHHHHH
Confidence            5556666655443333  56667777777777776665442  344667777777777742      2446667777766


Q ss_pred             cCcchhhhhc
Q 038405          757 NCQALSEIIE  766 (863)
Q Consensus       757 ~~~~l~~i~~  766 (863)
                      .|.....+|.
T Consensus       231 ~n~~~g~ip~  240 (272)
T 3rfs_A          231 INKHSGVVRN  240 (272)
T ss_dssp             HHHTGGGBBC
T ss_pred             HHhCCCcccC
Confidence            6665555443

>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=99.71  E-value=7.6e-17  Score=171.25  Aligned_cols=190  Identities=20%  Similarity=0.254  Sum_probs=128.7

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|.+.+|.+..++.  +..+++|++|++++| .+..+|. ++.+++|++|++++|.+..+| .+..+++|++|++
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 LDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDL  114 (308)
T ss_dssp             HHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEEC
T ss_pred             cCCcCEEEeeCCCccCchh--hhccCCCCEEEccCC-cCCCChh-HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEEC
Confidence            5667777777776666653  667777777777777 6666666 777777777777777777765 4777777777777


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|.  +..+++|++|++++|.+..+..                                      ...+++|
T Consensus       115 ~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~~~~~--------------------------------------l~~l~~L  153 (308)
T 1h6u_A          115 TSTQ-ITDVTP--LAGLSNLQVLYLDLNQITNISP--------------------------------------LAGLTNL  153 (308)
T ss_dssp             TTSC-CCCCGG--GTTCTTCCEEECCSSCCCCCGG--------------------------------------GGGCTTC
T ss_pred             CCCC-CCCchh--hcCCCCCCEEECCCCccCcCcc--------------------------------------ccCCCCc
Confidence            7776 555553  6777777777777654321100                                      1123456


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      +.|++++|.......+..+++|+.|++++|.+.++++    +..+++|+.|++++|.. ..++.+..+++|+.|++++|.
T Consensus       154 ~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~----l~~l~~L~~L~L~~N~l-~~~~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          154 QYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP----LASLPNLIEVHLKNNQI-SDVSPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             CEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECTTSCC-CBCGGGTTCTTCCEEEEEEEE
T ss_pred             cEEEccCCcCCCChhhcCCCCCCEEECCCCccCcChh----hcCCCCCCEEEccCCcc-CccccccCCCCCCEEEccCCe
Confidence            6677777665554456777788888888887766643    34677888888888754 444457778888888888776


Q ss_pred             c
Q 038405          760 A  760 (863)
Q Consensus       760 ~  760 (863)
                      .
T Consensus       229 i  229 (308)
T 1h6u_A          229 I  229 (308)
T ss_dssp             E
T ss_pred             e
Confidence            3

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.71  E-value=1.2e-16  Score=167.16  Aligned_cols=216  Identities=17%  Similarity=0.151  Sum_probs=156.1

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEE  583 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~  583 (863)
                      +...+..+..+|....++|++|++++|.+..++...|..+++|++|++++| .+..+|. .++++++|++|++++|.+..
T Consensus        12 ~~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           12 YQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNPIQS   90 (276)
T ss_dssp             EECTTSCCSSCCSSSCTTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             EEecCCCccccCCCCCCCccEEECCCCcccccCHhHhccccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCCccCc
Confidence            344455566677766778999999999888888777888999999999998 6666654 68889999999999998888


Q ss_pred             cc-hhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecC
Q 038405          584 LP-SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGS  662 (863)
Q Consensus       584 lP-~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~  662 (863)
                      +| ..+.++++|++|++++|. +..++...++++++|++|++++|.+.....                            
T Consensus        91 ~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l----------------------------  141 (276)
T 2z62_A           91 LALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVAHNLIQSFKL----------------------------  141 (276)
T ss_dssp             ECTTTTTTCTTCCEEECTTSC-CCCSTTCCCTTCTTCCEEECCSSCCCCCCC----------------------------
T ss_pred             cChhhhcCCccccEEECCCCC-ccccCchhcccCCCCCEEECcCCccceecC----------------------------
Confidence            76 458889999999999887 555655448889999999998775432110                            


Q ss_pred             chhhhhhhccccccccccEEEecccCCcccc--cccccCCcc----eeEeccCcccccCCCCCCCCCCCCCCEEEEecCC
Q 038405          663 ASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLRNMMHLE----TLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP  736 (863)
Q Consensus       663 ~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~--~l~~~~~L~----~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~  736 (863)
                             ......+++|+.|++++|......  .+..+++|+    +|++++|.+..+++..   ....+|+.|++++|.
T Consensus       142 -------~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~---~~~~~L~~L~L~~n~  211 (276)
T 2z62_A          142 -------PEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGA---FKEIRLKELALDTNQ  211 (276)
T ss_dssp             -------CGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTS---SCSCCEEEEECCSSC
T ss_pred             -------chhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCccc---cCCCcccEEECCCCc
Confidence                   001123456778888877765543  244555555    7888888888775532   234579999999886


Q ss_pred             CCCCCc-ccccCCCcceEeeccCcc
Q 038405          737 VIRDLT-WIREAPNLQFLSLVNCQA  760 (863)
Q Consensus       737 ~~~~l~-~l~~l~~L~~L~L~~~~~  760 (863)
                      ....++ .+..+++|+.|+|++|+.
T Consensus       212 l~~~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          212 LKSVPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             CSCCCTTTTTTCCSCCEEECCSSCB
T ss_pred             eeecCHhHhcccccccEEEccCCcc
Confidence            544333 357889999999988764

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.68  E-value=7.6e-18  Score=179.58  Aligned_cols=243  Identities=14%  Similarity=0.060  Sum_probs=141.7

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccc--cchhhh------hcCCCccEEeccCCcCccccchhh--hcccc
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEI--FPHRFF------ESMGALKVLDLSYNLDLTQLPAEM--GALIN  570 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~--l~~~~~------~~l~~L~~L~Ls~~~~i~~lp~~i--~~L~~  570 (863)
                      .++.+.+.+|.+ .+|......|+.|++++|.+..  +|....      ..+++|++|+|++|.....+|..+  +.+++
T Consensus        44 ~L~~l~l~~n~l-~~p~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~  122 (312)
T 1wwl_A           44 SLEYLLKRVDTE-ADLGQFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPD  122 (312)
T ss_dssp             ECTTHHHHCCTT-CCCHHHHHHHHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCC
T ss_pred             CceeEeeccccc-ccHHHHHHHHhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCC
Confidence            455566666666 5554433448888888886643  443321      157888888888883333677766  78888


Q ss_pred             cceeeccCCCccccchhhhcc-----cCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchh
Q 038405          571 LRCLNLSNTSIEELPSEIMYL-----KNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDE  645 (863)
Q Consensus       571 L~~L~L~~~~i~~lP~~i~~L-----~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~  645 (863)
                      |++|++++|.+..+|..++.+     ++|++|++++|. +..+|...++++++|++|++++|.+.+...       ....
T Consensus       123 L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-------~~~~  194 (312)
T 1wwl_A          123 LNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFSCEQVRVFPALSTLDLSDNPELGERG-------LISA  194 (312)
T ss_dssp             CSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCCTTTCCCCSSCCEEECCSCTTCHHHH-------HHHH
T ss_pred             ccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCC-CccchHHHhccCCCCCEEECCCCCcCcchH-------HHHH
Confidence            888888888888888777777     888888888887 556664458888888888888775322100       0000


Q ss_pred             hhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc-----ccccCCcceeEeccCcccccCCCCCC
Q 038405          646 LECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-----LRNMMHLETLNIVECSLERVDPTFNG  720 (863)
Q Consensus       646 L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-----l~~~~~L~~L~l~~~~l~~~~~~~~~  720 (863)
                      +                         ....+++|+.|++++|.......     +..+++|++|++++|.+.+..+.. .
T Consensus       195 ~-------------------------~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-~  248 (312)
T 1wwl_A          195 L-------------------------CPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAP-S  248 (312)
T ss_dssp             S-------------------------CTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCS-C
T ss_pred             H-------------------------HhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchh-h
Confidence            0                         00123455566666555442211     234556666666666655543211 2


Q ss_pred             CCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          721 WTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       721 ~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      +..+++|+.|++++|.....+..+.  ++|++|+|++|.. ..+|          ....+++|+.|++++.
T Consensus       249 ~~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~N~l-~~~p----------~~~~l~~L~~L~L~~N  306 (312)
T 1wwl_A          249 CDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYNRL-DRNP----------SPDELPQVGNLSLKGN  306 (312)
T ss_dssp             CCCCTTCCEEECTTSCCSSCCSSCC--SEEEEEECCSSCC-CSCC----------CTTTSCEEEEEECTTC
T ss_pred             hhhcCCCCEEECCCCccChhhhhcc--CCceEEECCCCCC-CCCh----------hHhhCCCCCEEeccCC
Confidence            2345666666666664432222232  5666666666642 2221          1344566666666553

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.68  E-value=2.2e-16  Score=161.23  Aligned_cols=112  Identities=20%  Similarity=0.307  Sum_probs=73.7

Q ss_pred             ccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccC-CCccccch-hh
Q 038405          512 IEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSN-TSIEELPS-EI  588 (863)
Q Consensus       512 ~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~-~~i~~lP~-~i  588 (863)
                      +..+|. ..+++++|++++|.++.++...|..+++|++|++++|..+..+|. .++++++|++|++++ |.++.+|. .+
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~~~~f  101 (239)
T 2xwt_C           23 IQRIPS-LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDAL  101 (239)
T ss_dssp             CSSCCC-CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSE
T ss_pred             ccccCC-CCCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHh
Confidence            555665 555777777777777777766677777777777777732655554 566777777777776 67776664 36


Q ss_pred             hcccCccEEecCCCCCccccchhhhcCCCCCc---eeeccCc
Q 038405          589 MYLKNLKILLLDGMRHFHLIPARVFSSLLSLK---VFSLFST  627 (863)
Q Consensus       589 ~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~---~L~l~~~  627 (863)
                      .++++|++|++++|. +..+|.  ++.+++|+   +|++++|
T Consensus       102 ~~l~~L~~L~l~~n~-l~~lp~--~~~l~~L~~L~~L~l~~N  140 (239)
T 2xwt_C          102 KELPLLKFLGIFNTG-LKMFPD--LTKVYSTDIFFILEITDN  140 (239)
T ss_dssp             ECCTTCCEEEEEEEC-CCSCCC--CTTCCBCCSEEEEEEESC
T ss_pred             CCCCCCCEEeCCCCC-Cccccc--cccccccccccEEECCCC
Confidence            667777777777765 455654  55566665   6666554

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

Probab=99.68  E-value=4e-16  Score=162.50  Aligned_cols=197  Identities=23%  Similarity=0.318  Sum_probs=142.6

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEEec
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLL  599 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l  599 (863)
                      +.++++++++.++.+|..+   .+.|++|++++| .+..+|. .++++++|++|++++|.+..+|.. +.++++|++|++
T Consensus        17 ~~~~l~~~~~~l~~ip~~~---~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l   92 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSNI---PADTKKLDLQSN-KLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWV   92 (270)
T ss_dssp             TTTEEECTTSCCSSCCSCC---CTTCSEEECCSS-CCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEEC
T ss_pred             CCCEEEccCCCCCccCCCC---CCCCCEEECcCC-CCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEEC
Confidence            4677888888777777642   257888888888 5666654 677888888888888888888766 467888888888


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|...+.++++|++|++++|.+..+.                                              
T Consensus        93 ~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~----------------------------------------------  125 (270)
T 2o6q_A           93 TDNK-LQALPIGVFDQLVNLAELRLDRNQLKSLP----------------------------------------------  125 (270)
T ss_dssp             CSSC-CCCCCTTTTTTCSSCCEEECCSSCCCCCC----------------------------------------------
T ss_pred             CCCc-CCcCCHhHcccccCCCEEECCCCccCeeC----------------------------------------------
Confidence            8876 66666666777888888877765432110                                              


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc-ccccCCCcceEeeccC
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT-WIREAPNLQFLSLVNC  758 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~-~l~~l~~L~~L~L~~~  758 (863)
                                  ...+..+++|++|++++|.+..++..  .+..+++|+.|++++|......+ .+..+++|++|+|++|
T Consensus       126 ------------~~~~~~l~~L~~L~Ls~n~l~~~~~~--~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N  191 (270)
T 2o6q_A          126 ------------PRVFDSLTKLTYLSLGYNELQSLPKG--VFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNN  191 (270)
T ss_dssp             ------------TTTTTTCTTCCEEECCSSCCCCCCTT--TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             ------------HHHhCcCcCCCEEECCCCcCCccCHh--HccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCC
Confidence                        00156678999999999998877553  35678999999999996544443 4788999999999998


Q ss_pred             cchhhhhcccCCccccccCccCcccceecccccc
Q 038405          759 QALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP  792 (863)
Q Consensus       759 ~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~  792 (863)
                      . +..++.        .....+++|+.|.|.+.+
T Consensus       192 ~-l~~~~~--------~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          192 Q-LKRVPE--------GAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             C-CSCCCT--------TTTTTCTTCCEEECCSSC
T ss_pred             c-CCcCCH--------HHhccccCCCEEEecCCC
Confidence            6 344432        234567888888887654

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

Probab=99.68  E-value=1.7e-17  Score=187.75  Aligned_cols=233  Identities=15%  Similarity=0.140  Sum_probs=181.7

Q ss_pred             cccceEEEeccCCccccCCC-C--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceee
Q 038405          499 WREDFRLSLWGSSIEYLPET-P--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLN  575 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~-~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~  575 (863)
                      .++++.|++.+|.+..++.. .  +++|++|++++|.+...++  +..+++|++|+|++| .+..+|.    .++|++|+
T Consensus        33 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N-~l~~l~~----~~~L~~L~  105 (487)
T 3oja_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNN-YVQELLV----GPSIETLH  105 (487)
T ss_dssp             GGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSS-EEEEEEE----CTTCCEEE
T ss_pred             CCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCC-cCCCCCC----CCCcCEEE
Confidence            34789999999999887643 2  8999999999998887776  889999999999999 7777764    38999999


Q ss_pred             ccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCC-ccccchhhhhhcccce
Q 038405          576 LSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPN-QTTILDELECLGNQIY  654 (863)
Q Consensus       576 L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~-~~~~l~~L~~l~n~L~  654 (863)
                      +++|.|..+|..  .+++|++|++++|. +..+++..++++++|++|++++|.+....+.... ....|+.|....|.+.
T Consensus       106 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          106 AANNNISRVSCS--RGQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIY  182 (487)
T ss_dssp             CCSSCCCCEEEC--CCSSCEEEECCSSC-CCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCC
T ss_pred             CcCCcCCCCCcc--ccCCCCEEECCCCC-CCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccc
Confidence            999999988764  57899999999998 5555444488999999999999987665443322 3455666666665555


Q ss_pred             eeEEeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEe
Q 038405          655 EISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIR  733 (863)
Q Consensus       655 ~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~  733 (863)
                      .++.              ...+++|+.|++++|.....++ +..+++|+.|++++|.+.+++.   .+..+++|+.|+++
T Consensus       183 ~~~~--------------~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~lp~---~l~~l~~L~~L~l~  245 (487)
T 3oja_A          183 DVKG--------------QVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEK---ALRFSQNLEHFDLR  245 (487)
T ss_dssp             EEEC--------------CCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECT---TCCCCTTCCEEECT
T ss_pred             cccc--------------cccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCCcCcccch---hhccCCCCCEEEcC
Confidence            4421              1236789999999998876654 8889999999999999988765   34578999999999


Q ss_pred             cCCCC-CC-CcccccCCCcceEeeccC
Q 038405          734 VCPVI-RD-LTWIREAPNLQFLSLVNC  758 (863)
Q Consensus       734 ~~~~~-~~-l~~l~~l~~L~~L~L~~~  758 (863)
                      +|+.. .. +.++..++.|+.|.++.+
T Consensus       246 ~N~l~c~~~~~~~~~l~~L~~l~~~~~  272 (487)
T 3oja_A          246 GNGFHCGTLRDFFSKNQRVQTVAKQTV  272 (487)
T ss_dssp             TCCBCHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCCCcCcchHHHHHhCCCCcEEecccc
Confidence            99765 22 245778888888877643

>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=99.67  E-value=6.3e-16  Score=164.10  Aligned_cols=190  Identities=19%  Similarity=0.263  Sum_probs=160.5

Q ss_pred             ccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeec
Q 038405          498 SWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNL  576 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L  576 (863)
                      ..+.++.+++.++.+..++... +++|++|++++|.+..++.  +..+++|++|++++| .+..+| .++.+++|++|++
T Consensus        39 ~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           39 DLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGN-PLKNVS-AIAGLQSIKTLDL  114 (308)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSC-CCSCCG-GGTTCTTCCEEEC
T ss_pred             HcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCcCCCChh--HccCCCCCEEEccCC-cCCCch-hhcCCCCCCEEEC
Confidence            4568899999999999888655 9999999999999999887  889999999999999 788876 5999999999999


Q ss_pred             cCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceee
Q 038405          577 SNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI  656 (863)
Q Consensus       577 ~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l  656 (863)
                      ++|.+..+|. +..+++|++|++++|. +..+|.  ++.+++|++|++++|.+..+..                      
T Consensus       115 ~~n~l~~~~~-l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~~~~~----------------------  168 (308)
T 1h6u_A          115 TSTQITDVTP-LAGLSNLQVLYLDLNQ-ITNISP--LAGLTNLQYLSIGNAQVSDLTP----------------------  168 (308)
T ss_dssp             TTSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECCSSCCCCCGG----------------------
T ss_pred             CCCCCCCchh-hcCCCCCCEEECCCCc-cCcCcc--ccCCCCccEEEccCCcCCCChh----------------------
Confidence            9999999986 9999999999999997 666765  8899999999999875432110                      


Q ss_pred             EEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCC
Q 038405          657 SITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCP  736 (863)
Q Consensus       657 ~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~  736 (863)
                                      ...+++|+.|++++|.......+..+++|++|++++|.+.++++    +..+++|+.|++++|+
T Consensus       169 ----------------l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~N~l~~~~~----l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          169 ----------------LANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSP----LANTSNLFIVTLTNQT  228 (308)
T ss_dssp             ----------------GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECTTSCCCBCGG----GTTCTTCCEEEEEEEE
T ss_pred             ----------------hcCCCCCCEEECCCCccCcChhhcCCCCCCEEEccCCccCcccc----ccCCCCCCEEEccCCe
Confidence                            11345788899998887766668889999999999999887753    3478999999999996


Q ss_pred             C
Q 038405          737 V  737 (863)
Q Consensus       737 ~  737 (863)
                      .
T Consensus       229 i  229 (308)
T 1h6u_A          229 I  229 (308)
T ss_dssp             E
T ss_pred             e
Confidence            4

>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=99.67  E-value=2.5e-16  Score=170.75  Aligned_cols=238  Identities=16%  Similarity=0.106  Sum_probs=173.2

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccce-eeccCCC
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRC-LNLSNTS  580 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~-L~L~~~~  580 (863)
                      +.+...++.++++|....+++++|++++|.++.+|.+.|.++++|++|+|++|...+.+|. .|.++++|++ +.+++|+
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~~~~N~   91 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANN   91 (350)
T ss_dssp             TEEEEESTTCCSCCTTCCTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETT
T ss_pred             CEEEecCCCCCccCcCcCCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCc
Confidence            3456677788888887788999999999999999988899999999999999944566664 4678888775 5566779


Q ss_pred             ccccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccC-cchhhhccCCCCcc-ccchhhhhhcccceeeE
Q 038405          581 IEELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS-TELIELHRMPPNQT-TILDELECLGNQIYEIS  657 (863)
Q Consensus       581 i~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~-~~~~~~~~~~~~~~-~~l~~L~~l~n~L~~l~  657 (863)
                      +..+|. .+..+++|++|++++|. +..+|...+....++..|++.+ +.+..+....+... ..+..|....|.++.++
T Consensus        92 l~~l~~~~f~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~  170 (350)
T 4ay9_X           92 LLYINPEAFQNLPNLQYLLISNTG-IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIH  170 (350)
T ss_dssp             CCEECTTSBCCCTTCCEEEEEEEC-CSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEEC
T ss_pred             ccccCchhhhhccccccccccccc-cccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCC
Confidence            998854 57899999999999987 6667765466677788888865 33433333322222 22344444444444333


Q ss_pred             EeecCchhhhhhhccccccccccEEEecccCCccccc---ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEec
Q 038405          658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID---LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRV  734 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~---l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~  734 (863)
                      ..             .....+++.|.+.++......+   |..+++|+.|++++|.++.++..     .+.+|+.|.+.+
T Consensus       171 ~~-------------~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~-----~~~~L~~L~~l~  232 (350)
T 4ay9_X          171 NS-------------AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY-----GLENLKKLRARS  232 (350)
T ss_dssp             TT-------------SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSS-----SCTTCCEEECTT
T ss_pred             hh-------------hccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChh-----hhccchHhhhcc
Confidence            21             1123468888887654443332   78899999999999998888654     478899999989


Q ss_pred             CCCCCCCcccccCCCcceEeeccCc
Q 038405          735 CPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       735 ~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      +..++.+|.+..+++|+.+++.++.
T Consensus       233 ~~~l~~lP~l~~l~~L~~l~l~~~~  257 (350)
T 4ay9_X          233 TYNLKKLPTLEKLVALMEASLTYPS  257 (350)
T ss_dssp             CTTCCCCCCTTTCCSCCEEECSCHH
T ss_pred             CCCcCcCCCchhCcChhhCcCCCCc
Confidence            8888888889999999999987543

>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=99.66  E-value=7.3e-16  Score=161.19  Aligned_cols=201  Identities=21%  Similarity=0.205  Sum_probs=158.0

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~  575 (863)
                      ..++.+.+.+|.+..++...   +++|++|++++|.+..++...|..+++|++|++++| .+..+| ..+.++++|++|+
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~  106 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLV  106 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTTTCTTCCEEE
T ss_pred             CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCC-ccCccChhhhcCCccccEEE
Confidence            46899999999999887633   899999999999999999888999999999999999 666555 6789999999999


Q ss_pred             ccCCCccccch-hhhcccCccEEecCCCCCccc--cchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc
Q 038405          576 LSNTSIEELPS-EIMYLKNLKILLLDGMRHFHL--IPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ  652 (863)
Q Consensus       576 L~~~~i~~lP~-~i~~L~~L~~L~l~~~~~l~~--lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~  652 (863)
                      +++|.+..++. .++++++|++|++++|. +..  +|.. ++++++|++|++++|.+..+..      ..+..+..+   
T Consensus       107 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~l~~~-~~~l~~L~~L~Ls~N~l~~~~~------~~~~~l~~L---  175 (276)
T 2z62_A          107 AVETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSNKIQSIYC------TDLRVLHQM---  175 (276)
T ss_dssp             CTTSCCCCSTTCCCTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSSCCCEECG------GGGHHHHTC---
T ss_pred             CCCCCccccCchhcccCCCCCEEECcCCc-cceecCchh-hccCCCCCEEECCCCCCCcCCH------HHhhhhhhc---
Confidence            99999998876 59999999999999998 444  5665 8999999999999887543321      111112111   


Q ss_pred             ceeeEEeecCchhhhhhhcccccccccc-EEEecccCCccccc-ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEE
Q 038405          653 IYEISITLGSASALFKINFSWKLCSCIK-RLTIMHNLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHL  730 (863)
Q Consensus       653 L~~l~~~~~~~~~l~~l~~~~~~~~~L~-~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L  730 (863)
                                              +.+. .|++++|....... .....+|++|++++|.++.+++.  .+..+++|+.|
T Consensus       176 ------------------------~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~--~~~~l~~L~~L  229 (276)
T 2z62_A          176 ------------------------PLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDG--IFDRLTSLQKI  229 (276)
T ss_dssp             ------------------------TTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCCTT--TTTTCCSCCEE
T ss_pred             ------------------------cccceeeecCCCcccccCccccCCCcccEEECCCCceeecCHh--HhcccccccEE
Confidence                                    1222 67777777655443 33345899999999999887654  45679999999


Q ss_pred             EEecCCCC
Q 038405          731 SIRVCPVI  738 (863)
Q Consensus       731 ~L~~~~~~  738 (863)
                      ++++|+..
T Consensus       230 ~l~~N~~~  237 (276)
T 2z62_A          230 WLHTNPWD  237 (276)
T ss_dssp             ECCSSCBC
T ss_pred             EccCCccc
Confidence            99999643

>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=99.66  E-value=4.2e-16  Score=159.17  Aligned_cols=129  Identities=18%  Similarity=0.330  Sum_probs=114.0

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeeccc-ccccchhhhhcCCCccEEeccC-CcCccccc-hhhhcccccce
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTV-LEIFPHRFFESMGALKVLDLSY-NLDLTQLP-AEMGALINLRC  573 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~-l~~l~~~~~~~l~~L~~L~Ls~-~~~i~~lp-~~i~~L~~L~~  573 (863)
                      ..++.+.+.+|.++.++...   +++|++|++++|. +..+++..|..+++|++|++++ | .+..+| ..+.++++|++
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n-~l~~i~~~~f~~l~~L~~  109 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR-NLTYIDPDALKELPLLKF  109 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEET-TCCEECTTSEECCTTCCE
T ss_pred             CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCC-CeeEcCHHHhCCCCCCCE
Confidence            47899999999999988743   8999999999996 9999988899999999999998 6 777776 46889999999


Q ss_pred             eeccCCCccccchhhhcccCcc---EEecCCCCCccccchhhhcCCCCCc-eeeccCcchh
Q 038405          574 LNLSNTSIEELPSEIMYLKNLK---ILLLDGMRHFHLIPARVFSSLLSLK-VFSLFSTELI  630 (863)
Q Consensus       574 L~L~~~~i~~lP~~i~~L~~L~---~L~l~~~~~l~~lp~~~i~~L~~L~-~L~l~~~~~~  630 (863)
                      |++++|.++.+|. +..+++|+   +|++++|..+..+|...+.++++|+ +|++++|.+.
T Consensus       110 L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~  169 (239)
T 2xwt_C          110 LGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFT  169 (239)
T ss_dssp             EEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCC
T ss_pred             EeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCc
Confidence            9999999999997 88888888   9999999448888887799999999 9999876543

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.66  E-value=5.2e-16  Score=161.77  Aligned_cols=210  Identities=15%  Similarity=0.175  Sum_probs=157.4

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG  601 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~  601 (863)
                      .+..+.+..+.+.....  ...+++|+.|+++++ .+..++. ++.+++|++|++++|.+..+| .++++++|++|++++
T Consensus        20 ~l~~l~l~~~~~~~~~~--~~~l~~L~~L~l~~~-~i~~~~~-l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~   94 (272)
T 3rfs_A           20 ETIKANLKKKSVTDAVT--QNELNSIDQIIANNS-DIKSVQG-IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTG   94 (272)
T ss_dssp             HHHHHHHTCSCTTSEEC--HHHHTTCCEEECTTS-CCCCCTT-GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTT
T ss_pred             HHHHHHhcCcccccccc--cccccceeeeeeCCC-Ccccccc-cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCC
Confidence            33444444444444433  567899999999999 7777764 899999999999999999875 789999999999999


Q ss_pred             CCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccE
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKR  681 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~  681 (863)
                      |. +..+|...++++++|++|++++|.+..+.+..                                    ...+++|+.
T Consensus        95 n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~------------------------------------~~~l~~L~~  137 (272)
T 3rfs_A           95 NQ-LQSLPNGVFDKLTNLKELVLVENQLQSLPDGV------------------------------------FDKLTNLTY  137 (272)
T ss_dssp             SC-CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTT------------------------------------TTTCTTCCE
T ss_pred             Cc-cCccChhHhcCCcCCCEEECCCCcCCccCHHH------------------------------------hccCCCCCE
Confidence            97 67777776899999999999987654322111                                    123457888


Q ss_pred             EEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc-ccccCCCcceEeeccC
Q 038405          682 LTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT-WIREAPNLQFLSLVNC  758 (863)
Q Consensus       682 L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~-~l~~l~~L~~L~L~~~  758 (863)
                      |++++|......+  +..+++|++|++++|.++++++.  .+..+++|+.|++++|.....++ .+..+++|+.|++++|
T Consensus       138 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          138 LNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEG--VFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDN  215 (272)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT--TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS
T ss_pred             EECCCCccCccCHHHhccCccCCEEECCCCCcCccCHH--HhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCC
Confidence            8888887665544  67889999999999998877553  35578999999999997655443 3688999999999988


Q ss_pred             cchhhhhcccCCccccccCccCcccceeccccc
Q 038405          759 QALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       759 ~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      ...                ..+|+|+.+.+...
T Consensus       216 ~~~----------------~~~~~l~~l~~~~n  232 (272)
T 3rfs_A          216 PWD----------------CTCPGIRYLSEWIN  232 (272)
T ss_dssp             CBC----------------CCTTTTHHHHHHHH
T ss_pred             Ccc----------------ccCcHHHHHHHHHH
Confidence            642                23566666666543

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.65  E-value=9.1e-17  Score=171.20  Aligned_cols=239  Identities=18%  Similarity=0.175  Sum_probs=172.3

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcc--ccchhhh-------cccccceeeccCCCcc-ccchhh-
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT--QLPAEMG-------ALINLRCLNLSNTSIE-ELPSEI-  588 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~--~lp~~i~-------~L~~L~~L~L~~~~i~-~lP~~i-  588 (863)
                      .++|+.|.+++|.+ .+|..+...   |++|+|++| .+.  .+|..+.       ++++|++|++++|.+. .+|..+ 
T Consensus        42 ~~~L~~l~l~~n~l-~~p~~~~~~---L~~L~L~~n-~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~  116 (312)
T 1wwl_A           42 GRSLEYLLKRVDTE-ADLGQFTDI---IKSLSLKRL-TVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLL  116 (312)
T ss_dssp             EEECTTHHHHCCTT-CCCHHHHHH---HHHCCCCEE-EEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSS
T ss_pred             CCCceeEeeccccc-ccHHHHHHH---Hhhcccccc-cccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHH
Confidence            45677888888877 777764433   888888888 453  4666665       7888999999999887 678776 


Q ss_pred             -hcccCccEEecCCCCCccccchhhhcCC-----CCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecC
Q 038405          589 -MYLKNLKILLLDGMRHFHLIPARVFSSL-----LSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGS  662 (863)
Q Consensus       589 -~~L~~L~~L~l~~~~~l~~lp~~~i~~L-----~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~  662 (863)
                       +.+++|++|++++|. +..+|.. ++.+     ++|++|++++|.+....+..                          
T Consensus       117 ~~~l~~L~~L~Ls~N~-l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~~~--------------------------  168 (312)
T 1wwl_A          117 EATGPDLNILNLRNVS-WATRDAW-LAELQQWLKPGLKVLSIAQAHSLNFSCEQ--------------------------  168 (312)
T ss_dssp             SCCSCCCSEEEEESCB-CSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCCCTTT--------------------------
T ss_pred             HhcCCCccEEEccCCC-CcchhHH-HHHHHHhhcCCCcEEEeeCCCCccchHHH--------------------------
Confidence             888999999999887 5555654 6666     88899988887654332111                          


Q ss_pred             chhhhhhhccccccccccEEEecccCCcccc----c--ccccCCcceeEeccCcccccCCCC-CCCCCCCCCCEEEEecC
Q 038405          663 ASALFKINFSWKLCSCIKRLTIMHNLDSHSI----D--LRNMMHLETLNIVECSLERVDPTF-NGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       663 ~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~----~--l~~~~~L~~L~l~~~~l~~~~~~~-~~~~~l~~L~~L~L~~~  735 (863)
                                ...+++|+.|++++|......    .  +..+++|++|++++|.+..++... ..+..+++|+.|++++|
T Consensus       169 ----------~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N  238 (312)
T 1wwl_A          169 ----------VRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHN  238 (312)
T ss_dssp             ----------CCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTS
T ss_pred             ----------hccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCC
Confidence                      123457889999998754431    1  388999999999999987442110 01235689999999999


Q ss_pred             CCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeec
Q 038405          736 PVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT  813 (863)
Q Consensus       736 ~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~  813 (863)
                      ......  +.+..+++|++|+|++|.. ..+|.         ..  +++|+.|+++++ +++.++. ...+++|+.|+++
T Consensus       239 ~l~~~~~~~~~~~l~~L~~L~Ls~N~l-~~ip~---------~~--~~~L~~L~Ls~N-~l~~~p~-~~~l~~L~~L~L~  304 (312)
T 1wwl_A          239 SLRDAAGAPSCDWPSQLNSLNLSFTGL-KQVPK---------GL--PAKLSVLDLSYN-RLDRNPS-PDELPQVGNLSLK  304 (312)
T ss_dssp             CCCSSCCCSCCCCCTTCCEEECTTSCC-SSCCS---------SC--CSEEEEEECCSS-CCCSCCC-TTTSCEEEEEECT
T ss_pred             cCCcccchhhhhhcCCCCEEECCCCcc-Chhhh---------hc--cCCceEEECCCC-CCCCChh-HhhCCCCCEEecc
Confidence            765544  4566789999999999984 45543         11  289999999985 6777754 5667888888888


Q ss_pred             cC
Q 038405          814 NC  815 (863)
Q Consensus       814 ~C  815 (863)
                      +.
T Consensus       305 ~N  306 (312)
T 1wwl_A          305 GN  306 (312)
T ss_dssp             TC
T ss_pred             CC
Confidence            75

>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=99.64  E-value=1.7e-15  Score=159.22  Aligned_cols=196  Identities=18%  Similarity=0.107  Sum_probs=158.8

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccccchhhhcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~  598 (863)
                      +++++.+++.++.++.+|..+   .+.|++|+|++| .+..+ |..+.++++|++|++++|.|+.+|.. +.+++|++|+
T Consensus         9 l~~l~~l~~~~~~l~~ip~~~---~~~l~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~   83 (290)
T 1p9a_G            9 VASHLEVNCDKRNLTALPPDL---PKDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLD   83 (290)
T ss_dssp             STTCCEEECTTSCCSSCCSCC---CTTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEE
T ss_pred             cCCccEEECCCCCCCcCCCCC---CCCCCEEEcCCC-cCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEE
Confidence            678999999999999999764   368999999999 56555 56799999999999999999999875 8899999999


Q ss_pred             cCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccc
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSC  678 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~  678 (863)
                      +++|. +..+|.. +.++++|++|++++|.+..+.+..                                    ...+++
T Consensus        84 Ls~N~-l~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~------------------------------------~~~l~~  125 (290)
T 1p9a_G           84 LSHNQ-LQSLPLL-GQTLPALTVLDVSFNRLTSLPLGA------------------------------------LRGLGE  125 (290)
T ss_dssp             CCSSC-CSSCCCC-TTTCTTCCEEECCSSCCCCCCSST------------------------------------TTTCTT
T ss_pred             CCCCc-CCcCchh-hccCCCCCEEECCCCcCcccCHHH------------------------------------HcCCCC
Confidence            99997 7788876 789999999999987654332111                                    123457


Q ss_pred             ccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeec
Q 038405          679 IKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLV  756 (863)
Q Consensus       679 L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~  756 (863)
                      |+.|++++|.......  +..+++|+.|++++|.++.++..  .+..+++|+.|++++|.....+..+..+++|+.|+|+
T Consensus       126 L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~--~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~  203 (290)
T 1p9a_G          126 LQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAG--LLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (290)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTT--TTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             CCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHH--HhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeC
Confidence            8888888887765554  77889999999999998887654  4567899999999999765555667778899999999


Q ss_pred             cCcc
Q 038405          757 NCQA  760 (863)
Q Consensus       757 ~~~~  760 (863)
                      +|+.
T Consensus       204 ~Np~  207 (290)
T 1p9a_G          204 GNPW  207 (290)
T ss_dssp             SCCB
T ss_pred             CCCc
Confidence            8864

>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=99.63  E-value=1.8e-15  Score=163.88  Aligned_cols=234  Identities=14%  Similarity=0.184  Sum_probs=145.6

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCcc-ccchh-hhcccCccEEecC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIE-ELPSE-IMYLKNLKILLLD  600 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~-~lP~~-i~~L~~L~~L~l~  600 (863)
                      ++++.+++.++.+|..+   .+++++|+|++| .++.+|. .|.++++|++|+|++|.+. .+|.. +.++++|+.+...
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~~   87 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL---PRNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   87 (350)
T ss_dssp             TEEEEESTTCCSCCTTC---CTTCSEEEEESC-CCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEE
T ss_pred             CEEEecCCCCCccCcCc---CCCCCEEEccCC-cCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcc
Confidence            67788888899999864   468999999999 8899986 5899999999999999875 56654 7889998876555


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccccc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK  680 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~  680 (863)
                      ++..+..+|++.+..+++|++|++++|.+..+........                                    ..+.
T Consensus        88 ~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~------------------------------------~~l~  131 (350)
T 4ay9_X           88 KANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHS------------------------------------LQKV  131 (350)
T ss_dssp             EETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCB------------------------------------SSCE
T ss_pred             cCCcccccCchhhhhccccccccccccccccCCchhhccc------------------------------------chhh
Confidence            4445888887779999999999999987654432221111                                    1122


Q ss_pred             EEEecccCCccccc---cccc-CCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc--ccccCCCcceEe
Q 038405          681 RLTIMHNLDSHSID---LRNM-MHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT--WIREAPNLQFLS  754 (863)
Q Consensus       681 ~L~l~~~~~~~~~~---l~~~-~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~--~l~~l~~L~~L~  754 (863)
                      .|++.++......+   +..+ ..++.|++++|.++.++..   .....+|+.|.+.++..++.++  .+..+++|+.|+
T Consensus       132 ~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~---~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~Ld  208 (350)
T 4ay9_X          132 LLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNS---AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILD  208 (350)
T ss_dssp             EEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTT---SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEE
T ss_pred             hhhhccccccccccccchhhcchhhhhhccccccccCCChh---hccccchhHHhhccCCcccCCCHHHhccCcccchhh
Confidence            23332222111111   2222 2455666666666555432   1133456666666554555543  245666666666


Q ss_pred             eccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeec
Q 038405          755 LVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT  813 (863)
Q Consensus       755 L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~  813 (863)
                      |++|. ++.+|.           ..|.+|+.|.+.++.+++.++. ...+++|+.+.+.
T Consensus       209 Ls~N~-l~~lp~-----------~~~~~L~~L~~l~~~~l~~lP~-l~~l~~L~~l~l~  254 (350)
T 4ay9_X          209 ISRTR-IHSLPS-----------YGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLT  254 (350)
T ss_dssp             CTTSC-CCCCCS-----------SSCTTCCEEECTTCTTCCCCCC-TTTCCSCCEEECS
T ss_pred             cCCCC-cCccCh-----------hhhccchHhhhccCCCcCcCCC-chhCcChhhCcCC
Confidence            66664 333332           2355555555555556665552 3345566665554

>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=99.63  E-value=3.5e-15  Score=153.48  Aligned_cols=125  Identities=26%  Similarity=0.383  Sum_probs=83.5

Q ss_pred             ceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCC
Q 038405          502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTS  580 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~  580 (863)
                      .+.+.+.++.+..+|....++++.|++++|.+..+++..|..+++|++|+|++| .+..++ ..+.++++|++|++++|.
T Consensus        16 ~~~l~~~~~~l~~~p~~~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~   94 (251)
T 3m19_A           16 KKEVDCQGKSLDSVPSGIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGLANNQ   94 (251)
T ss_dssp             GTEEECTTCCCSSCCSCCCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             CeEEecCCCCccccCCCCCCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEECCCCc
Confidence            445666677777777666667777777777777776666777777777777777 444443 346677777777777777


Q ss_pred             ccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcc
Q 038405          581 IEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       581 i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      +..+|.. +..+++|++|++++|. +..+|...+.++++|++|++++|.
T Consensus        95 l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~  142 (251)
T 3m19_A           95 LASLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGVFDRLTKLKELRLNTNQ  142 (251)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccccChhHhcccCCCCEEEcCCCc-CCCcChhHhccCCcccEEECcCCc
Confidence            7766643 5667777777777765 556665555666677777666543

>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=99.61  E-value=2.3e-17  Score=186.65  Aligned_cols=135  Identities=15%  Similarity=0.091  Sum_probs=79.8

Q ss_pred             cccccEEEecccCCccc-----c-cccccCCcceeEeccCcccccCCCC--C-CCCCCCCCCEEEEecCCCCCC-----C
Q 038405          676 CSCIKRLTIMHNLDSHS-----I-DLRNMMHLETLNIVECSLERVDPTF--N-GWTNFHNLHHLSIRVCPVIRD-----L  741 (863)
Q Consensus       676 ~~~L~~L~l~~~~~~~~-----~-~l~~~~~L~~L~l~~~~l~~~~~~~--~-~~~~l~~L~~L~L~~~~~~~~-----l  741 (863)
                      +++|+.|++++|.....     . .+..+++|++|++++|.+.+.....  . .....++|+.|++++|.....     .
T Consensus       255 ~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~  334 (461)
T 1z7x_W          255 SSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFS  334 (461)
T ss_dssp             TCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHH
T ss_pred             CCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHH
Confidence            56788888887765542     1 1556778888888888765321100  0 011235788888888864332     1


Q ss_pred             cccccCCCcceEeeccCcchhhhhcccCCccccccC-ccCcccceeccccccccc-----ccccCccCCCCccEEeeccC
Q 038405          742 TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESH-NYFAYLMVIDLDSLPSLK-----RICHGTMPFPSLQNVSVTNC  815 (863)
Q Consensus       742 ~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~-~~~~~L~~L~L~~~~~L~-----~l~~~~~~~~~L~~L~i~~C  815 (863)
                      ..+..+++|++|+|++|......+...     .... ...++|+.|+++++ .++     .++.....+++|+.|++++|
T Consensus       335 ~~l~~~~~L~~L~Ls~n~i~~~~~~~l-----~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~l~~N  408 (461)
T 1z7x_W          335 SVLAQNRFLLELQISNNRLEDAGVREL-----CQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLRELDLSNN  408 (461)
T ss_dssp             HHHHHCSSCCEEECCSSBCHHHHHHHH-----HHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCCEEECCSS
T ss_pred             HHHhhCCCccEEEccCCccccccHHHH-----HHHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhCCCccEEECCCC
Confidence            345677888888888886432211100     0011 12578888888887 344     34444445788888888876


Q ss_pred             C
Q 038405          816 P  816 (863)
Q Consensus       816 ~  816 (863)
                      +
T Consensus       409 ~  409 (461)
T 1z7x_W          409 C  409 (461)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.58  E-value=9.4e-15  Score=153.61  Aligned_cols=168  Identities=22%  Similarity=0.274  Sum_probs=91.3

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|+.|++++|.+..++.  +..+++|++|++++| .+..+|. ++++++|++|++++|.+..+|. +..+++|++|++
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 LNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSL  119 (291)
T ss_dssp             HHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEEC
T ss_pred             cCcccEEEccCCCcccChh--HhcCCCCCEEEccCC-ccCCCcc-cccCCCCCEEECCCCcCCCChh-hccCCCCCEEEC
Confidence            4455555555555554433  445555555555555 4444444 5555555555555555555443 555555555555


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..++.  +..+++|++|++++                                                     
T Consensus       120 ~~n~-i~~~~~--l~~l~~L~~L~l~~-----------------------------------------------------  143 (291)
T 1h6t_A          120 EHNG-ISDING--LVHLPQLESLYLGN-----------------------------------------------------  143 (291)
T ss_dssp             TTSC-CCCCGG--GGGCTTCCEEECCS-----------------------------------------------------
T ss_pred             CCCc-CCCChh--hcCCCCCCEEEccC-----------------------------------------------------
Confidence            5554 333321  44555555555544                                                     


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                             |.......+..+++|+.|++++|.+.++++    +..+++|+.|++++|. ++.++.+..+++|+.|++++|.
T Consensus       144 -------n~l~~~~~l~~l~~L~~L~L~~N~l~~~~~----l~~l~~L~~L~L~~N~-i~~l~~l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          144 -------NKITDITVLSRLTKLDTLSLEDNQISDIVP----LAGLTKLQNLYLSKNH-ISDLRALAGLKNLDVLELFSQE  211 (291)
T ss_dssp             -------SCCCCCGGGGGCTTCSEEECCSSCCCCCGG----GTTCTTCCEEECCSSC-CCBCGGGTTCTTCSEEEEEEEE
T ss_pred             -------CcCCcchhhccCCCCCEEEccCCccccchh----hcCCCccCEEECCCCc-CCCChhhccCCCCCEEECcCCc
Confidence                   333333234556666667776666655533    2356677777777663 3445556667777777777665


Q ss_pred             c
Q 038405          760 A  760 (863)
Q Consensus       760 ~  760 (863)
                      .
T Consensus       212 i  212 (291)
T 1h6t_A          212 C  212 (291)
T ss_dssp             E
T ss_pred             c
Confidence            3

>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=99.58  E-value=2.7e-15  Score=157.72  Aligned_cols=126  Identities=20%  Similarity=0.254  Sum_probs=110.7

Q ss_pred             ccccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhccccccee
Q 038405          496 ADSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCL  574 (863)
Q Consensus       496 ~~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L  574 (863)
                      ......++.+.+.++.+..++... +++|++|++++|.+..+++  +..+++|++|++++| .+..+|. ++.+++|++|
T Consensus        42 ~~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n-~l~~~~~-l~~l~~L~~L  117 (291)
T 1h6t_A           42 QNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDEN-KVKDLSS-LKDLKKLKSL  117 (291)
T ss_dssp             HHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCGGG-GTTCTTCCEE
T ss_pred             hhhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCC-cCCCChh-hccCCCCCEE
Confidence            345678999999999999887765 9999999999999999887  889999999999999 7888775 9999999999


Q ss_pred             eccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          575 NLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       575 ~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      ++++|.+..+| .+..+++|++|++++|. +..++ . ++++++|++|++++|.+
T Consensus       118 ~L~~n~i~~~~-~l~~l~~L~~L~l~~n~-l~~~~-~-l~~l~~L~~L~L~~N~l  168 (291)
T 1h6t_A          118 SLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDIT-V-LSRLTKLDTLSLEDNQI  168 (291)
T ss_dssp             ECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCG-G-GGGCTTCSEEECCSSCC
T ss_pred             ECCCCcCCCCh-hhcCCCCCCEEEccCCc-CCcch-h-hccCCCCCEEEccCCcc
Confidence            99999999985 68999999999999997 66664 3 88999999999987654

>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=99.57  E-value=1.9e-14  Score=147.99  Aligned_cols=104  Identities=24%  Similarity=0.272  Sum_probs=76.1

Q ss_pred             CCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccccchh-hhcccCccEEe
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILL  598 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~  598 (863)
                      ...++++++++.+..+|..+   .+.|++|+|++| .+..+ |..++++++|++|+|++|.|..++.. +.++++|++|+
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~---~~~l~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~   89 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGI---PADTEKLDLQST-GLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLG   89 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCC---CTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCeEEecCCCCccccCCCC---CCCCCEEEccCC-CcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEE
Confidence            35677788888787777653   257888888888 55544 44677888888888888888877654 67788888888


Q ss_pred             cCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      +++|. +..+|...+..+++|++|++++|.+
T Consensus        90 L~~n~-l~~~~~~~~~~l~~L~~L~L~~N~l  119 (251)
T 3m19_A           90 LANNQ-LASLPLGVFDHLTQLDKLYLGGNQL  119 (251)
T ss_dssp             CTTSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCCc-ccccChhHhcccCCCCEEEcCCCcC
Confidence            88877 6666666677888888888877644

>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=99.57  E-value=1.5e-15  Score=167.25  Aligned_cols=109  Identities=15%  Similarity=0.086  Sum_probs=71.8

Q ss_pred             CCCccEEEeecccccccchh----hhhcCCCccEEeccCCcCcc----ccchhh-------hcccccceeeccCCCccc-
Q 038405          520 CPHLQTLLVRFTVLEIFPHR----FFESMGALKVLDLSYNLDLT----QLPAEM-------GALINLRCLNLSNTSIEE-  583 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~----~~~~l~~L~~L~Ls~~~~i~----~lp~~i-------~~L~~L~~L~L~~~~i~~-  583 (863)
                      +++|++|++++|.+......    .+..+++|++|+|++| .+.    .+|..+       ..+++|++|+|++|.+.. 
T Consensus        31 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~-~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~  109 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  109 (386)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             CCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCccc-ccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHH
Confidence            67788888888866554322    2557788888888876 332    334444       577888888888887775 


Q ss_pred             ----cchhhhcccCccEEecCCCCCccccchh---hhcCC---------CCCceeeccCcch
Q 038405          584 ----LPSEIMYLKNLKILLLDGMRHFHLIPAR---VFSSL---------LSLKVFSLFSTEL  629 (863)
Q Consensus       584 ----lP~~i~~L~~L~~L~l~~~~~l~~lp~~---~i~~L---------~~L~~L~l~~~~~  629 (863)
                          +|..+.++++|++|++++|......+..   .+..+         ++|++|++++|.+
T Consensus       110 ~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l  171 (386)
T 2ca6_A          110 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRL  171 (386)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCC
T ss_pred             HHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCC
Confidence                6777888888888888888632111111   13333         7788888877654

>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=99.57  E-value=1.1e-15  Score=172.91  Aligned_cols=102  Identities=20%  Similarity=0.101  Sum_probs=51.0

Q ss_pred             cceEEEeccCCccccCCC---C-CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCccc-cchhhh-ccc-
Q 038405          501 EDFRLSLWGSSIEYLPET---P-CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLTQ-LPAEMG-ALI-  569 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~---~-~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~-~L~-  569 (863)
                      .++.+.+.++.+...+..   . +++|++|++++|.+....    ...+..+++|++|+|++| .+.. .+..+. .+. 
T Consensus         4 ~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~   82 (461)
T 1z7x_W            4 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQT   82 (461)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCS
T ss_pred             cceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCC-cCChHHHHHHHHHHhh
Confidence            345555555555433211   1 556666666666544211    122445566666666665 3332 222222 233 


Q ss_pred             ---ccceeeccCCCcc-----ccchhhhcccCccEEecCCCC
Q 038405          570 ---NLRCLNLSNTSIE-----ELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       570 ---~L~~L~L~~~~i~-----~lP~~i~~L~~L~~L~l~~~~  603 (863)
                         +|++|++++|.|.     .+|..+.++++|++|++++|.
T Consensus        83 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~  124 (461)
T 1z7x_W           83 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  124 (461)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc
Confidence               4666666666555     345555666666666666655

>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=99.57  E-value=4.2e-15  Score=171.49  Aligned_cols=78  Identities=21%  Similarity=0.290  Sum_probs=45.7

Q ss_pred             cccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeecc
Q 038405          678 CIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN  757 (863)
Q Consensus       678 ~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~  757 (863)
                      +|+.|++++|.......+..+++|+.|+|++|.+.++++    +..+++|+.|+|++|. +..++.+..+++|+.|+|++
T Consensus       132 ~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~~~~----l~~l~~L~~L~Ls~N~-i~~l~~l~~l~~L~~L~L~~  206 (605)
T 1m9s_A          132 QLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVP----LAGLTKLQNLYLSKNH-ISDLRALAGLKNLDVLELFS  206 (605)
T ss_dssp             TCSEEECCSSCCCCCGGGGSCTTCSEEECCSSCCCCCGG----GTTCTTCCEEECCSSC-CCBCGGGTTCTTCSEEECCS
T ss_pred             ccCEEECCCCccCCchhhcccCCCCEEECcCCcCCCchh----hccCCCCCEEECcCCC-CCCChHHccCCCCCEEEccC
Confidence            444444444444333335556667777777666655533    2356677777777763 34455666677777777776


Q ss_pred             Ccc
Q 038405          758 CQA  760 (863)
Q Consensus       758 ~~~  760 (863)
                      |..
T Consensus       207 N~l  209 (605)
T 1m9s_A          207 QEC  209 (605)
T ss_dssp             EEE
T ss_pred             CcC
Confidence            654

>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=99.56  E-value=3.2e-15  Score=161.25  Aligned_cols=104  Identities=17%  Similarity=0.117  Sum_probs=55.0

Q ss_pred             CCccEEEeecccccccchhhhhcCCCccEEeccCCcCcc-c-cchhhhcccccceeeccCCCcc-ccchhhhcccCccEE
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT-Q-LPAEMGALINLRCLNLSNTSIE-ELPSEIMYLKNLKIL  597 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~-~-lp~~i~~L~~L~~L~L~~~~i~-~lP~~i~~L~~L~~L  597 (863)
                      ++++.|.+.+|.+...+.. +..+++|++|++++| .+. . +|..+..+++|++|++++|.+. ..|..++++++|++|
T Consensus        70 ~~l~~L~l~~n~l~~~~~~-~~~~~~L~~L~L~~~-~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L  147 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNS-VIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRL  147 (336)
T ss_dssp             TTCSEEECTTCEECSCCCS-CCCCBCCCEEECTTC-EECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEE
T ss_pred             ccceEEEcCCccccccchh-hccCCCCCEEEccCC-CcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEE
Confidence            5556666665555444444 234556666666665 232 2 5555555666666666666554 344555556666666


Q ss_pred             ecCCCCCccc--cchhhhcCCCCCceeeccCc
Q 038405          598 LLDGMRHFHL--IPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       598 ~l~~~~~l~~--lp~~~i~~L~~L~~L~l~~~  627 (863)
                      ++++|..+..  +|.. +.++++|++|++++|
T Consensus       148 ~L~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~  178 (336)
T 2ast_B          148 NLSGCSGFSEFALQTL-LSSCSRLDELNLSWC  178 (336)
T ss_dssp             ECTTCBSCCHHHHHHH-HHHCTTCCEEECCCC
T ss_pred             ECCCCCCCCHHHHHHH-HhcCCCCCEEcCCCC
Confidence            6665532331  3332 455555666655544

>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=99.56  E-value=4.5e-15  Score=171.22  Aligned_cols=168  Identities=18%  Similarity=0.230  Sum_probs=95.2

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|+.|.+++|.+..++.  +..+++|++|+|++| .+..+|. ++.+++|++|+|++|.|..+| .+..+++|++|+|
T Consensus        42 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~L  116 (605)
T 1m9s_A           42 LNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGN-KLTDIKP-LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSL  116 (605)
T ss_dssp             HTTCCCCBCTTCCCCCCTT--GGGCTTCCEEECTTS-CCCCCGG-GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEEC
T ss_pred             CCCCCEEECcCCCCCCChH--HccCCCCCEEEeeCC-CCCCChh-hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEEe
Confidence            5566666666666655553  556666666666666 5555554 666666666666666666655 4666666666666


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. +..+|.  +..|++|+.|++++|.+..+           ..                           ...+++|
T Consensus       117 s~N~-l~~l~~--l~~l~~L~~L~Ls~N~l~~l-----------~~---------------------------l~~l~~L  155 (605)
T 1m9s_A          117 EHNG-ISDING--LVHLPQLESLYLGNNKITDI-----------TV---------------------------LSRLTKL  155 (605)
T ss_dssp             TTSC-CCCCGG--GGGCTTCSEEECCSSCCCCC-----------GG---------------------------GGSCTTC
T ss_pred             cCCC-CCCCcc--ccCCCccCEEECCCCccCCc-----------hh---------------------------hcccCCC
Confidence            6665 444432  55666666666665533211           00                           1123355


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCC
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPV  737 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~  737 (863)
                      +.|+|++|......++..+++|+.|+|++|.+.+++    .+..+++|+.|+|++|+.
T Consensus       156 ~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~i~~l~----~l~~l~~L~~L~L~~N~l  209 (605)
T 1m9s_A          156 DTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR----ALAGLKNLDVLELFSQEC  209 (605)
T ss_dssp             SEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCG----GGTTCTTCSEEECCSEEE
T ss_pred             CEEECcCCcCCCchhhccCCCCCEEECcCCCCCCCh----HHccCCCCCEEEccCCcC
Confidence            556665555544444555666666666666655542    233556666666666543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.56  E-value=1e-14  Score=155.22  Aligned_cols=198  Identities=17%  Similarity=0.108  Sum_probs=93.3

Q ss_pred             CCccEEeccCCcCccccchhh--hcccccceeeccCCCcccc-c----hhhhcccCccEEecCCCCCccccchhhhcCCC
Q 038405          545 GALKVLDLSYNLDLTQLPAEM--GALINLRCLNLSNTSIEEL-P----SEIMYLKNLKILLLDGMRHFHLIPARVFSSLL  617 (863)
Q Consensus       545 ~~L~~L~Ls~~~~i~~lp~~i--~~L~~L~~L~L~~~~i~~l-P----~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~  617 (863)
                      ++|++|++++|......|..+  +.+++|++|++++|.+... |    ..+..+++|++|++++|. +..+|...+++++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~~~~l~  169 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAH-SPAFSCEQVRAFP  169 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCS-SCCCCTTSCCCCT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCC-cchhhHHHhccCC
Confidence            445555555553223444444  5555555555555555431 1    123345555555555554 3333333355555


Q ss_pred             CCceeeccCcchhh---hccCC-CCccccchhhhhhcccceeeEEeecCchhhhhhhcc-ccccccccEEEecccCCccc
Q 038405          618 SLKVFSLFSTELIE---LHRMP-PNQTTILDELECLGNQIYEISITLGSASALFKINFS-WKLCSCIKRLTIMHNLDSHS  692 (863)
Q Consensus       618 ~L~~L~l~~~~~~~---~~~~~-~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~-~~~~~~L~~L~l~~~~~~~~  692 (863)
                      +|++|++++|.+..   +.... ......|+.|....|.++          .+...... ...+++|+.|++++|.....
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            55555555554321   10000 001112222222221111          01110000 12234666777777665544


Q ss_pred             cc--cccc---CCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          693 ID--LRNM---MHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       693 ~~--l~~~---~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      .+  +..+   ++|++|++++|.++.++..     .+++|+.|++++|.. +.++.+..+++|+.|+|++|.
T Consensus       240 ~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~-----~~~~L~~L~Ls~N~l-~~~~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          240 VNPSAPRCMWSSALNSLNLSFAGLEQVPKG-----LPAKLRVLDLSSNRL-NRAPQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             CCSCCSSCCCCTTCCCEECCSSCCCSCCSC-----CCSCCSCEECCSCCC-CSCCCTTSCCCCSCEECSSTT
T ss_pred             chhhHHhccCcCcCCEEECCCCCCCchhhh-----hcCCCCEEECCCCcC-CCCchhhhCCCccEEECcCCC
Confidence            21  3333   5777777777776655432     136777777777743 333445666777777777665

>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=99.55  E-value=7.9e-14  Score=154.95  Aligned_cols=283  Identities=12%  Similarity=0.055  Sum_probs=173.5

Q ss_pred             ccccchhhHHHHHHHhh-cc------CCceEEEE--EcCCCChHHHHhhhhhhccccc--cCCCC-EEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCI-ED------QSEQTIGL--YGMGGVGKITLLKKPNNKFLDV--NHCFD-LVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L-~~------~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~--~~~F~-~~~wv~~~~~~~~~  220 (863)
                      +.++||+++++++.+++ ..      ...+.+.|  +|++|+||||||+.+++.....  ...|+ .++|+.+....+..
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 42      24456666  9999999999999999876211  01222 46788877777888


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccc--------ccccccccC---CCCC--CCe
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL--------DLSKTGVSL---SDCQ--NGS  285 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~--------~~~~~~~~l---~~~~--~gs  285 (863)
                      .++..++.+++..... ...+..+....+.+.+.  +++++|||||++...        .+..+...+   +..+  ...
T Consensus       102 ~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            9999999988764311 12234555666666665  679999999998732        122222222   1112  345


Q ss_pred             EEEEeecchh-------------------hhcccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcC------CCh
Q 038405          286 KIVFTTRSEE-------------------VCVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECK------GLP  340 (863)
Q Consensus       286 ~iivTTr~~~-------------------v~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~------glP  340 (863)
                      .||+||+...                   +.+.+++.++++++|...+..... ...-..+....|++.|+      |.|
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~G~p  259 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLR-DTVWEPRHLELISDVYGEDKGGDGSA  259 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBC-TTSCCHHHHHHHHHHHCGGGTSCCCH
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCC-CCCCChHHHHHHHHHHHHhccCCCcH
Confidence            5887887443                   117889999999999865431110 11122577889999999      999


Q ss_pred             HHHHHHHHHHh-----CC---CChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCC--CCC
Q 038405          341 LALITIARAMS-----SR---RSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFP--EEN  410 (863)
Q Consensus       341 Lai~~~~~~l~-----~~---~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp--~~~  410 (863)
                      ..+..+.....     ..   -+.+.+..+......            ...+.-++..||++ .+.++..++.+.  .+.
T Consensus       260 ~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l~~~-~~~~l~aia~l~~~~~~  326 (412)
T 1w5s_A          260 RRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEALSIH-ELIILRLIAEATLGGME  326 (412)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSSCHH-HHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcCCHH-HHHHHHHHHHHHhcCCC
Confidence            76555443221     11   123333333321100            23345577889986 888888888653  333


Q ss_pred             ccchHHHHHHHH--h-c--CCCCCccchhHHhhhHHHHHHHHHHhcccccC
Q 038405          411 NIRKDELIDLWI--G-E--GFLSDFRSITTARNQGEYIIGSLKLACLLESG  456 (863)
Q Consensus       411 ~i~~~~Li~~wi--a-e--g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  456 (863)
                      .++...+...+.  + .  |. ..     ........+++.|.+.+++...
T Consensus       327 ~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          327 WINAGLLRQRYEDASLTMYNV-KP-----RGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             SBCHHHHHHHHHHHHHHHSCC-CC-----CCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CccHHHHHHHHHHHHHhhcCC-CC-----CCHHHHHHHHHHHHhCCCEEee
Confidence            455555544332  2 1  21 00     0123455679999999999764

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.54  E-value=7.7e-14  Score=151.31  Aligned_cols=283  Identities=12%  Similarity=0.031  Sum_probs=169.5

Q ss_pred             CccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC------CHHHHHHH
Q 038405          152 TEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG------NLEKIQEV  225 (863)
Q Consensus       152 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~------~~~~~~~~  225 (863)
                      ++.++||+++++++.+++...  +++.|+|++|+|||||++++++..   .     .+|+.+....      +...+.+.
T Consensus        11 ~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           11 REDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             hHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHH
Confidence            357999999999999998764  799999999999999999998764   1     6777765432      55666666


Q ss_pred             HHHHcCCC--------------ccc--ccccChhhHHHHHHHHhcc-CcEEEEEcccccccc--------cccccccCCC
Q 038405          226 IRKKLDIS--------------DYI--WNMKGEYDRAVEILISLRR-KKFVLLLDDVWERLD--------LSKTGVSLSD  280 (863)
Q Consensus       226 i~~~l~~~--------------~~~--~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~--------~~~~~~~l~~  280 (863)
                      +...+...              ...  ....+..+....+.+..+. ++++||+||++....        +......+..
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence            66655420              000  0112344455555555543 499999999987433        1111111111


Q ss_pred             CCCCeEEEEeecchhh----------------------hcccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCC
Q 038405          281 CQNGSKIVFTTRSEEV----------------------CVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKG  338 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v----------------------~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g  338 (863)
                      ..++.++|+|++....                      .+.+|+.+|+.+++..........   ...+.+..|++.|+|
T Consensus       161 ~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~---~~~~~~~~i~~~tgG  237 (350)
T 2qen_A          161 SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD---VPENEIEEAVELLDG  237 (350)
T ss_dssp             HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHHTT
T ss_pred             hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHhCC
Confidence            1247889998875321                      078999999999998754322111   125678899999999


Q ss_pred             ChHHHHHHHHHHhCCCChhhH-HHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHH
Q 038405          339 LPLALITIARAMSSRRSPREW-QYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDEL  417 (863)
Q Consensus       339 lPLai~~~~~~l~~~~~~~~w-~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~L  417 (863)
                      .|+++..++..+....+...+ ....+......      ...+.   .+.+ + ++. .+..+..+|.   + ..+...+
T Consensus       238 ~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~l~---~l~~-~-~~~-~~~~l~~la~---g-~~~~~~l  301 (350)
T 2qen_A          238 IPGWLVVFGVEYLRNGDFGRAMKRTLEVAKGLI------MGELE---ELRR-R-SPR-YVDILRAIAL---G-YNRWSLI  301 (350)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH------HHHHH---HHHH-H-CHH-HHHHHHHHHT---T-CCSHHHH
T ss_pred             CHHHHHHHHHHHhccccHhHHHHHHHHHHHHHH------HHHHH---HHHh-C-Chh-HHHHHHHHHh---C-CCCHHHH
Confidence            999999998765432222222 11111110000      00111   1111 1 554 7888888887   2 2344444


Q ss_pred             HHHHHhcCCCCCccchhHHhhhHHHHHHHHHHhcccccCCCCCCeEEe-chHHHHHH
Q 038405          418 IDLWIGEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVKM-HDVVRDMA  473 (863)
Q Consensus       418 i~~wiaeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~~m-Hdlv~d~~  473 (863)
                      ....-+. .- .     ........+++.|.+.+++....   ..|.+ |++++++.
T Consensus       302 ~~~~~~~-~~-~-----~~~~~~~~~l~~L~~~gli~~~~---~~y~~~~p~~~~~~  348 (350)
T 2qen_A          302 RDYLAVK-GT-K-----IPEPRLYALLENLKKMNWIVEED---NTYKIADPVVATVL  348 (350)
T ss_dssp             HHHHHHT-TC-C-----CCHHHHHHHHHHHHHTTSEEEET---TEEEESSHHHHHHH
T ss_pred             HHHHHHH-hC-C-----CCHHHHHHHHHHHHhCCCEEecC---CEEEEecHHHHHHH
Confidence            4332111 00 0     01234567899999999998652   34554 67777764

>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=99.54  E-value=4e-15  Score=163.74  Aligned_cols=100  Identities=15%  Similarity=0.097  Sum_probs=75.7

Q ss_pred             eecccccccchhhhhcCCCccEEeccCCcCcc-c----cchhhhcccccceeeccCCCcc----ccchhh-------hcc
Q 038405          528 VRFTVLEIFPHRFFESMGALKVLDLSYNLDLT-Q----LPAEMGALINLRCLNLSNTSIE----ELPSEI-------MYL  591 (863)
Q Consensus       528 l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~-~----lp~~i~~L~~L~~L~L~~~~i~----~lP~~i-------~~L  591 (863)
                      +....+..++.. +..+++|++|+|++| .+. .    ++..+..+++|++|+|++|.+.    .+|..+       .++
T Consensus        16 l~~~~~~~l~~~-l~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~   93 (386)
T 2ca6_A           16 ITTEDEKSVFAV-LLEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKC   93 (386)
T ss_dssp             CCSHHHHTTSHH-HHHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHH-HhcCCCccEEECCCC-CCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhC
Confidence            333345556554 778999999999999 444 3    3445678999999999998655    345544       689


Q ss_pred             cCccEEecCCCCCcc----ccchhhhcCCCCCceeeccCcchh
Q 038405          592 KNLKILLLDGMRHFH----LIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       592 ~~L~~L~l~~~~~l~----~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ++|++|++++|....    .+|.. +.++++|++|++++|.+.
T Consensus        94 ~~L~~L~Ls~n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~  135 (386)
T 2ca6_A           94 PKLHTVRLSDNAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLG  135 (386)
T ss_dssp             TTCCEEECCSCCCCTTTHHHHHHH-HHHCTTCCEEECCSSCCH
T ss_pred             CcccEEECCCCcCCHHHHHHHHHH-HHhCCCCCEEECcCCCCC
Confidence            999999999998443    36655 789999999999998764

>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=99.52  E-value=1.3e-14  Score=169.59  Aligned_cols=281  Identities=13%  Similarity=0.088  Sum_probs=145.7

Q ss_pred             CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCccccchhhhcccccceeecc------------------
Q 038405          520 CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLS------------------  577 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~------------------  577 (863)
                      +++|++|++++|.+..+.    ...+..+++|++|++++| .+..+|..+.++++|++|+++                  
T Consensus       191 ~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~  269 (592)
T 3ogk_B          191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF-EILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFP  269 (592)
T ss_dssp             CCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCC
T ss_pred             CCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhcc
Confidence            555666666555443111    122345556666666655 444555555555555555554                  


Q ss_pred             ---------CCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhh
Q 038405          578 ---------NTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELEC  648 (863)
Q Consensus       578 ---------~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~  648 (863)
                               ++....+|..+..+++|++|++++|.........++.++++|++|++.++ +.         ...+..+..
T Consensus       270 ~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~-~~---------~~~l~~~~~  339 (592)
T 3ogk_B          270 RKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNV-IG---------DRGLEVLAQ  339 (592)
T ss_dssp             TTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGG-GH---------HHHHHHHHH
T ss_pred             ccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCc-cC---------HHHHHHHHH
Confidence                     43344455555566666666666665211112222456666666666521 11         111222211


Q ss_pred             hcccceeeEEee----------cCchhhhhhhccccccccccEEEecccCCcccc--ccc-ccCCcceeEeccC----cc
Q 038405          649 LGNQIYEISITL----------GSASALFKINFSWKLCSCIKRLTIMHNLDSHSI--DLR-NMMHLETLNIVEC----SL  711 (863)
Q Consensus       649 l~n~L~~l~~~~----------~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~--~l~-~~~~L~~L~l~~~----~l  711 (863)
                      ...+|+.+.+..          ++.-....+......+++|+.|++..+......  .+. .+++|++|+++++    .+
T Consensus       340 ~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l  419 (592)
T 3ogk_B          340 YCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERI  419 (592)
T ss_dssp             HCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCC
T ss_pred             hCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccc
Confidence            112455565552          111111111111234567888888555443322  133 3778888888632    24


Q ss_pred             cccCCCC---CCCCCCCCCCEEEEecCCC-CCC--Cccc-ccCCCcceEeeccCcchhhhhcccCCccccccCccCcccc
Q 038405          712 ERVDPTF---NGWTNFHNLHHLSIRVCPV-IRD--LTWI-REAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLM  784 (863)
Q Consensus       712 ~~~~~~~---~~~~~l~~L~~L~L~~~~~-~~~--l~~l-~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~  784 (863)
                      ++.+...   .....+++|+.|+++.|.. +..  +..+ ..+|+|+.|+|++|.......        ......+++|+
T Consensus       420 ~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~--------~~~~~~~~~L~  491 (592)
T 3ogk_B          420 TDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGL--------MEFSRGCPNLQ  491 (592)
T ss_dssp             SSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHH--------HHHHTCCTTCC
T ss_pred             cCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHH--------HHHHhcCcccC
Confidence            4321100   0123477888888877653 221  1223 347888888888886432111        11234678999


Q ss_pred             eecccccccccc--cccCccCCCCccEEeeccCCCCCCC
Q 038405          785 VIDLDSLPSLKR--ICHGTMPFPSLQNVSVTNCPNLREL  821 (863)
Q Consensus       785 ~L~L~~~~~L~~--l~~~~~~~~~L~~L~i~~C~~L~~l  821 (863)
                      .|+|++|+ +..  +......+++|+.|++++|. ++.-
T Consensus       492 ~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~~  528 (592)
T 3ogk_B          492 KLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASMT  528 (592)
T ss_dssp             EEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCTT
T ss_pred             eeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc-CCHH
Confidence            99999987 442  22223457899999999997 6543

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.51  E-value=6.9e-14  Score=159.38  Aligned_cols=187  Identities=19%  Similarity=0.196  Sum_probs=99.3

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG  601 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~  601 (863)
                      +|++|++++|.+..+|..+   +++|++|+|++| .+..+|   +.+++|++|++++|.|+.+|. +.+  +|++|++++
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l---~~~L~~L~Ls~N-~l~~ip---~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls~  129 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL---PPQITVLEITQN-ALISLP---ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVDN  129 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC---CTTCSEEECCSS-CCSCCC---CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECCS
T ss_pred             CccEEEeCCCCCCccCHhH---cCCCCEEECcCC-CCcccc---cccCCCCEEEccCCCCCCcch-hhc--CCCEEECCC
Confidence            4455555555554444432   244555555555 444555   334555555555555555554 333  555555555


Q ss_pred             CCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccE
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKR  681 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~  681 (863)
                      |. +..+|.    .+++|++|++++|.+..++.                                        .+++|+.
T Consensus       130 N~-l~~lp~----~l~~L~~L~Ls~N~l~~lp~----------------------------------------~l~~L~~  164 (571)
T 3cvr_A          130 NQ-LTMLPE----LPALLEYINADNNQLTMLPE----------------------------------------LPTSLEV  164 (571)
T ss_dssp             SC-CSCCCC----CCTTCCEEECCSSCCSCCCC----------------------------------------CCTTCCE
T ss_pred             Cc-CCCCCC----cCccccEEeCCCCccCcCCC----------------------------------------cCCCcCE
Confidence            54 333443    34555555555443221100                                        0124455


Q ss_pred             EEecccCCcccccccccCCcceeEeccCcccccCCCCCC--CCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCc
Q 038405          682 LTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNG--WTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       682 L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~--~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~  759 (863)
                      |++++|.....+.+.  ++|+.|++++|.++.++. ...  ....+.|+.|+|++|.....++.+..+++|+.|+|++|.
T Consensus       165 L~Ls~N~L~~lp~l~--~~L~~L~Ls~N~L~~lp~-~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~  241 (571)
T 3cvr_A          165 LSVRNNQLTFLPELP--ESLEALDVSTNLLESLPA-VPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNP  241 (571)
T ss_dssp             EECCSSCCSCCCCCC--TTCCEEECCSSCCSSCCC-CC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSS
T ss_pred             EECCCCCCCCcchhh--CCCCEEECcCCCCCchhh-HHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCc
Confidence            555555443333322  678888888887776654 210  001122389999988655444557779999999999998


Q ss_pred             chhhhhc
Q 038405          760 ALSEIIE  766 (863)
Q Consensus       760 ~l~~i~~  766 (863)
                      ....+|.
T Consensus       242 l~~~~p~  248 (571)
T 3cvr_A          242 LSSRIRE  248 (571)
T ss_dssp             CCHHHHH
T ss_pred             CCCcCHH
Confidence            7666554

>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=99.51  E-value=1.7e-14  Score=155.60  Aligned_cols=127  Identities=16%  Similarity=0.075  Sum_probs=102.5

Q ss_pred             cceEEEeccCCccccCCCC--CCCccEEEeeccccccc-chhhhhcCCCccEEeccCCcCccccchhhhcccccceeecc
Q 038405          501 EDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIF-PHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLS  577 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l-~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~  577 (863)
                      .++.+.+.++.+...+...  +++|++|++++|.+... .+..+..+++|++|++++|......|..++.+++|++|+++
T Consensus        71 ~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~  150 (336)
T 2ast_B           71 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  150 (336)
T ss_dssp             TCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             cceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECC
Confidence            5677788877776654444  89999999999987643 33458899999999999994444778889999999999999


Q ss_pred             CC-Ccc--ccchhhhcccCccEEecCCCCCccc--cchhhhcCCC-CCceeeccCcc
Q 038405          578 NT-SIE--ELPSEIMYLKNLKILLLDGMRHFHL--IPARVFSSLL-SLKVFSLFSTE  628 (863)
Q Consensus       578 ~~-~i~--~lP~~i~~L~~L~~L~l~~~~~l~~--lp~~~i~~L~-~L~~L~l~~~~  628 (863)
                      +| .+.  .+|..+.++++|++|++++|..+..  ++.. +..++ +|++|++++|.
T Consensus       151 ~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~l~~~L~~L~l~~~~  206 (336)
T 2ast_B          151 GCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA-VAHVSETITQLNLSGYR  206 (336)
T ss_dssp             TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH-HHHSCTTCCEEECCSCG
T ss_pred             CCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH-HHhcccCCCEEEeCCCc
Confidence            99 788  4788899999999999999933543  4544 78899 99999998863

>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=99.51  E-value=3.2e-13  Score=146.86  Aligned_cols=279  Identities=11%  Similarity=0.100  Sum_probs=162.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-----CCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-----GNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-----~~~~~~~~~i~  227 (863)
                      +.++||+++++++.+ +..   +++.|+|++|+|||||++++++..   ..   ..+|+.+...     .+.......+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~---~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NL---PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TC---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CC---CEEEEEchhhccccCCCHHHHHHHHH
Confidence            579999999999999 765   699999999999999999999876   22   2578887642     34444444444


Q ss_pred             HHcC--------------C----Ccc----cc-----cccChhhHHHHHHHHhccCcEEEEEccccccc-----cccccc
Q 038405          228 KKLD--------------I----SDY----IW-----NMKGEYDRAVEILISLRRKKFVLLLDDVWERL-----DLSKTG  275 (863)
Q Consensus       228 ~~l~--------------~----~~~----~~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----~~~~~~  275 (863)
                      +.+.              .    ...    ..     ...........+.+.-+ ++++|||||++...     ++..+.
T Consensus        83 ~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           83 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHH
Confidence            3321              0    000    00     01122223333322211 49999999997632     222222


Q ss_pred             ccCCCCCCCeEEEEeecchhh------------------h----cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHH
Q 038405          276 VSLSDCQNGSKIVFTTRSEEV------------------C----VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVV  333 (863)
Q Consensus       276 ~~l~~~~~gs~iivTTr~~~v------------------~----l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~  333 (863)
                      ..+.....+.++|+|++....                  .    +.+|+.+|+.+++...+....... ..   . ..|+
T Consensus       162 ~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~---~-~~i~  236 (357)
T 2fna_A          162 AYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD---Y-EVVY  236 (357)
T ss_dssp             HHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC---H-HHHH
T ss_pred             HHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC-Cc---H-HHHH
Confidence            222122246789999886421                  0    789999999999987543211111 11   1 8899


Q ss_pred             HHcCCChHHHHHHHHHHhCCCChhhHHH-HHHHHhcCCCccCCCCccccchhh-cccC--CCChhhHhHHhhhhcCCCCC
Q 038405          334 GECKGLPLALITIARAMSSRRSPREWQY-VIDELQRNPSRFAGMGNLVFPILR-FSYD--NLTDDTLKTCFLYCSLFPEE  409 (863)
Q Consensus       334 ~~c~glPLai~~~~~~l~~~~~~~~w~~-~~~~l~~~~~~~~~~~~~i~~~l~-~sy~--~L~~~~~k~cfl~~~~Fp~~  409 (863)
                      +.|+|.|+++..++..+....+...|.. +.+....          .+..-+. +.++  .|++. .+..+..+|.   +
T Consensus       237 ~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~~~l~~~-~~~~l~~la~---g  302 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKK----------LILKEFENFLHGREIARKR-YLNIMRTLSK---C  302 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH----------HHHHHHHHHHTTCGGGHHH-HHHHHHHHTT---C
T ss_pred             HHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHH----------HHHHHHHHHhhccccccHH-HHHHHHHHHc---C
Confidence            9999999999999887654333333321 1111100          0111111 1111  56675 8899988887   2


Q ss_pred             CccchHHHHHHHH-hcCCCCCccchhHHhhhHHHHHHHHHHhcccccCCCCCCeEE-echHHHHHH
Q 038405          410 NNIRKDELIDLWI-GEGFLSDFRSITTARNQGEYIIGSLKLACLLESGEYSEDFVK-MHDVVRDMA  473 (863)
Q Consensus       410 ~~i~~~~Li~~wi-aeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~~~~~~~~-mHdlv~d~~  473 (863)
                      .  +...+....- ..|.  .     ........+++.|.+.+++....   ..|+ .|++++++.
T Consensus       303 ~--~~~~l~~~~~~~~g~--~-----~~~~~~~~~L~~L~~~gli~~~~---~~y~f~~~~~~~~l  356 (357)
T 2fna_A          303 G--KWSDVKRALELEEGI--E-----ISDSEIYNYLTQLTKHSWIIKEG---EKYCPSEPLISLAF  356 (357)
T ss_dssp             B--CHHHHHHHHHHHHCS--C-----CCHHHHHHHHHHHHHTTSEEESS---SCEEESSHHHHHHT
T ss_pred             C--CHHHHHHHHHHhcCC--C-----CCHHHHHHHHHHHHhCCCEEecC---CEEEecCHHHHHhh
Confidence            1  3444332110 1121  0     01234567799999999998653   3455 578888753

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.51  E-value=4.1e-14  Score=154.00  Aligned_cols=206  Identities=17%  Similarity=0.098  Sum_probs=120.0

Q ss_pred             CCCccEEEeecccccccch----hhhhcCC-CccEEeccCCcCccc-cchhhhcc-----cccceeeccCCCccccchh-
Q 038405          520 CPHLQTLLVRFTVLEIFPH----RFFESMG-ALKVLDLSYNLDLTQ-LPAEMGAL-----INLRCLNLSNTSIEELPSE-  587 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~----~~~~~l~-~L~~L~Ls~~~~i~~-lp~~i~~L-----~~L~~L~L~~~~i~~lP~~-  587 (863)
                      .++|++|++++|.+...+.    ..+..++ +|++|+|++| .+.. .+..+..+     ++|++|+|++|.+...+.. 
T Consensus        21 ~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~   99 (362)
T 3goz_A           21 PHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDE   99 (362)
T ss_dssp             CTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHH
T ss_pred             CCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHH
Confidence            4568888888888887776    5677787 8888888888 5543 35566665     8888888888888765433 


Q ss_pred             ----hhcc-cCccEEecCCCCCccccchhhh----cC-CCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeE
Q 038405          588 ----IMYL-KNLKILLLDGMRHFHLIPARVF----SS-LLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEIS  657 (863)
Q Consensus       588 ----i~~L-~~L~~L~l~~~~~l~~lp~~~i----~~-L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~  657 (863)
                          +..+ ++|++|++++|. +...+...+    .. .++|++|++++|.+....         ...+..         
T Consensus       100 l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~---------~~~l~~---------  160 (362)
T 3goz_A          100 LVKTLAAIPFTITVLDLGWND-FSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKS---------SDELIQ---------  160 (362)
T ss_dssp             HHHHHHTSCTTCCEEECCSSC-GGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSC---------HHHHHH---------
T ss_pred             HHHHHHhCCCCccEEECcCCc-CCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHH---------HHHHHH---------
Confidence                4444 788888888887 555444323    33 358888888887654210         011100         


Q ss_pred             EeecCchhhhhhhcccccc-ccccEEEecccCCccccc------cccc-CCcceeEeccCcccccCCC--CCCCCC-CCC
Q 038405          658 ITLGSASALFKINFSWKLC-SCIKRLTIMHNLDSHSID------LRNM-MHLETLNIVECSLERVDPT--FNGWTN-FHN  726 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~-~~L~~L~l~~~~~~~~~~------l~~~-~~L~~L~l~~~~l~~~~~~--~~~~~~-l~~  726 (863)
                                    ..... ++|+.|++++|.......      +..+ ++|++|++++|.+.+....  ...+.. .++
T Consensus       161 --------------~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~  226 (362)
T 3goz_A          161 --------------ILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNH  226 (362)
T ss_dssp             --------------HHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTT
T ss_pred             --------------HHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCC
Confidence                          00011 256666666665433221      2333 3666677766665542100  000111 246


Q ss_pred             CCEEEEecCCCCCCC-----cccccCCCcceEeeccCc
Q 038405          727 LHHLSIRVCPVIRDL-----TWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       727 L~~L~L~~~~~~~~l-----~~l~~l~~L~~L~L~~~~  759 (863)
                      |+.|+|++|......     ..+..+++|+.|+|++|.
T Consensus       227 L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~  264 (362)
T 3goz_A          227 VVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDI  264 (362)
T ss_dssp             CCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHH
T ss_pred             ceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCC
Confidence            667777666433221     123456667777776665

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.50  E-value=9.3e-15  Score=159.15  Aligned_cols=252  Identities=14%  Similarity=0.099  Sum_probs=168.1

Q ss_pred             EEeecccccccchhhhhcCCCccEEeccCCcCccccc-----hhhhccc-ccceeeccCCCcccc-chhhhcc-----cC
Q 038405          526 LLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-----AEMGALI-NLRCLNLSNTSIEEL-PSEIMYL-----KN  593 (863)
Q Consensus       526 L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-----~~i~~L~-~L~~L~L~~~~i~~l-P~~i~~L-----~~  593 (863)
                      +.+++|.+....+.++...++|++|+|++| .+...+     ..+.+++ +|++|+|++|.|... +..+..+     ++
T Consensus         3 ~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            3 YKLTLHPGSNPVEEFTSIPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             EECCCCTTCCHHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             cccccccchHHHHHHHhCCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            566777777777776777777999999999 676665     5677888 899999999999876 4556665     99


Q ss_pred             ccEEecCCCCCccccchhh----hcCC-CCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhh
Q 038405          594 LKILLLDGMRHFHLIPARV----FSSL-LSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFK  668 (863)
Q Consensus       594 L~~L~l~~~~~l~~lp~~~----i~~L-~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~  668 (863)
                      |++|++++|. +...+...    +..+ ++|++|++++|.+....         ...+.                     
T Consensus        82 L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~---------~~~l~---------------------  130 (362)
T 3goz_A           82 VTSLNLSGNF-LSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKS---------SSEFK---------------------  130 (362)
T ss_dssp             CCEEECCSSC-GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSC---------HHHHH---------------------
T ss_pred             ccEEECcCCc-CChHHHHHHHHHHHhCCCCccEEECcCCcCCcHH---------HHHHH---------------------
Confidence            9999999998 54443332    3444 89999999988754221         01110                     


Q ss_pred             hhccccc-cccccEEEecccCCccccc------ccccC-CcceeEeccCcccccCCCC--CCCCCC-CCCCEEEEecCCC
Q 038405          669 INFSWKL-CSCIKRLTIMHNLDSHSID------LRNMM-HLETLNIVECSLERVDPTF--NGWTNF-HNLHHLSIRVCPV  737 (863)
Q Consensus       669 l~~~~~~-~~~L~~L~l~~~~~~~~~~------l~~~~-~L~~L~l~~~~l~~~~~~~--~~~~~l-~~L~~L~L~~~~~  737 (863)
                        ..... +++|+.|++++|.......      +..++ +|++|++++|.+.+..+..  ..+..+ ++|+.|+|++|..
T Consensus       131 --~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i  208 (362)
T 3goz_A          131 --QAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLL  208 (362)
T ss_dssp             --HHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCG
T ss_pred             --HHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCC
Confidence              00111 3478999999987654221      34454 9999999999987653210  011234 5999999999964


Q ss_pred             CCC----C-ccccc-CCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccc-------cccccccCccCC
Q 038405          738 IRD----L-TWIRE-APNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP-------SLKRICHGTMPF  804 (863)
Q Consensus       738 ~~~----l-~~l~~-l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~-------~L~~l~~~~~~~  804 (863)
                      ...    + ..+.. .++|++|+|++|.....-+     ..+......+++|+.|+++++.       .+..+......+
T Consensus       209 ~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~-----~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l  283 (362)
T 3goz_A          209 GLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSL-----ENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNI  283 (362)
T ss_dssp             GGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCH-----HHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTC
T ss_pred             ChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHH-----HHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccC
Confidence            332    2 23444 4699999999997432111     1112234668899999998875       233444444456


Q ss_pred             CCccEEeeccCC
Q 038405          805 PSLQNVSVTNCP  816 (863)
Q Consensus       805 ~~L~~L~i~~C~  816 (863)
                      ++|+.|++++++
T Consensus       284 ~~L~~LdL~~N~  295 (362)
T 3goz_A          284 QKIILVDKNGKE  295 (362)
T ss_dssp             CEEEEECTTSCB
T ss_pred             CceEEEecCCCc
Confidence            777778777654

>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=99.50  E-value=3.6e-14  Score=165.85  Aligned_cols=290  Identities=16%  Similarity=0.116  Sum_probs=167.2

Q ss_pred             ceEEEeccCCc-c--ccCCCC--CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCcc-----ccchhhhc
Q 038405          502 DFRLSLWGSSI-E--YLPETP--CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLT-----QLPAEMGA  567 (863)
Q Consensus       502 ~~~l~l~~~~~-~--~l~~~~--~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~  567 (863)
                      ++.+.+.++.. .  .++...  |++|++|++++|.+....    ..++..+++|++|++++| .+.     .++..+.+
T Consensus       140 L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n-~~~~~~~~~l~~~~~~  218 (592)
T 3ogk_B          140 LETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMT-EFAKISPKDLETIARN  218 (592)
T ss_dssp             CCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTC-CCSSCCHHHHHHHHHH
T ss_pred             CcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeecc-CCCccCHHHHHHHHhh
Confidence            66777765541 1  122221  788899998888654432    234567888999999888 443     55666678


Q ss_pred             ccccceeeccCCCccccchhhhcccCccEEecCCCCCc--------------------------cccchhhhcCCCCCce
Q 038405          568 LINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHF--------------------------HLIPARVFSSLLSLKV  621 (863)
Q Consensus       568 L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l--------------------------~~lp~~~i~~L~~L~~  621 (863)
                      +++|++|++++|.+..+|..+.++++|++|+++++...                          ..+|.. +..+++|++
T Consensus       219 ~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~  297 (592)
T 3ogk_B          219 CRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPIL-FPFAAQIRK  297 (592)
T ss_dssp             CTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGG-GGGGGGCCE
T ss_pred             CCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHH-HhhcCCCcE
Confidence            88999999999888888888888888888888643211                          112221 334445555


Q ss_pred             eeccCcchhhhccCCCCccccchh-hhhhcccceeeEEeecCchhhhhhhccccccccccEEEecc----------cCCc
Q 038405          622 FSLFSTELIELHRMPPNQTTILDE-LECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH----------NLDS  690 (863)
Q Consensus       622 L~l~~~~~~~~~~~~~~~~~~l~~-L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~----------~~~~  690 (863)
                      |++++|.+...         .+.. +..+. +|+.+.+.  +......+......+++|+.|++++          |...
T Consensus       298 L~Ls~~~l~~~---------~~~~~~~~~~-~L~~L~L~--~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~  365 (592)
T 3ogk_B          298 LDLLYALLETE---------DHCTLIQKCP-NLEVLETR--NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLV  365 (592)
T ss_dssp             EEETTCCCCHH---------HHHHHHTTCT-TCCEEEEE--GGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCC
T ss_pred             EecCCCcCCHH---------HHHHHHHhCc-CCCEEecc--CccCHHHHHHHHHhCCCCCEEEeecCccccccccccCcc
Confidence            55554432110         1111 11112 44444444  1111122222223466788888883          3333


Q ss_pred             cccc----ccccCCcceeEeccCcccccCCCCCCC-CCCCCCCEEEEec---CCCCCCCc-------ccccCCCcceEee
Q 038405          691 HSID----LRNMMHLETLNIVECSLERVDPTFNGW-TNFHNLHHLSIRV---CPVIRDLT-------WIREAPNLQFLSL  755 (863)
Q Consensus       691 ~~~~----l~~~~~L~~L~l~~~~l~~~~~~~~~~-~~l~~L~~L~L~~---~~~~~~l~-------~l~~l~~L~~L~L  755 (863)
                      ....    ...+++|++|+++.+.+++....  .+ ..+++|+.|++++   |..++..|       .+..+++|+.|+|
T Consensus       366 ~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~--~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L  443 (592)
T 3ogk_B          366 SQRGLIALAQGCQELEYMAVYVSDITNESLE--SIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAF  443 (592)
T ss_dssp             CHHHHHHHHHHCTTCSEEEEEESCCCHHHHH--HHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEE
T ss_pred             CHHHHHHHHhhCccCeEEEeecCCccHHHHH--HHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEE
Confidence            2221    34578888888866665543211  11 1377889999885   33444321       1456889999999


Q ss_pred             ccCcc-h-hhhhcccCCccccccCccCcccceecccccccccc--cccCccCCCCccEEeeccCC
Q 038405          756 VNCQA-L-SEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKR--ICHGTMPFPSLQNVSVTNCP  816 (863)
Q Consensus       756 ~~~~~-l-~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~--l~~~~~~~~~L~~L~i~~C~  816 (863)
                      ++|.. + ...+.        .....+++|+.|.++++. +..  +......+++|+.|++++|+
T Consensus       444 ~~~~~~l~~~~~~--------~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~~~~~L~~L~l~~n~  499 (592)
T 3ogk_B          444 YLRQGGLTDLGLS--------YIGQYSPNVRWMLLGYVG-ESDEGLMEFSRGCPNLQKLEMRGCC  499 (592)
T ss_dssp             ECCGGGCCHHHHH--------HHHHSCTTCCEEEECSCC-SSHHHHHHHHTCCTTCCEEEEESCC
T ss_pred             ecCCCCccHHHHH--------HHHHhCccceEeeccCCC-CCHHHHHHHHhcCcccCeeeccCCC
Confidence            77653 1 11111        112347889999998764 432  22223457899999999886

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

Probab=99.49  E-value=9.5e-14  Score=138.25  Aligned_cols=126  Identities=26%  Similarity=0.385  Sum_probs=105.7

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~i  581 (863)
                      +.+...++.+..+|....++|++|++++|.+..++...|..+++|++|++++| .+..+|.. +..+++|++|++++|.+
T Consensus        10 ~~v~c~~~~l~~~p~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n~l   88 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQL   88 (208)
T ss_dssp             TEEECCSSCCSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCccCCCCCCCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCC-ccCccChhhcCCCCCcCEEECCCCcC
Confidence            35666677778888777889999999999998998888889999999999999 67777654 58899999999999999


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ..+|.. +.++++|++|++++|. +..+|...+.++++|++|++++|.+.
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~l~  137 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNTNQ-LQSLPDGVFDKLTQLKDLRLYQNQLK  137 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCS
T ss_pred             CccCHhHhcCccCCCEEEcCCCc-CcccCHhHhccCCcCCEEECCCCccc
Confidence            988876 6889999999999987 67777776888999999999877543

>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=99.48  E-value=8.6e-14  Score=139.64  Aligned_cols=129  Identities=23%  Similarity=0.406  Sum_probs=100.5

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i  581 (863)
                      +.+...++.+..+|....++++.|++++|.+..++...|..+++|++|+|++| .+..+ |..+.++++|++|+|++|.|
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~l   92 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNN-QISELAPDAFQGLRSLNSLVLYGNKI   92 (220)
T ss_dssp             TEEECTTSCCSSCCSSCCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSS-CCCEECTTTTTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCcCcCCCccCcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCC-cCCCcCHHHhhCCcCCCEEECCCCcC
Confidence            35666777777777766778888888888888888777888888888888888 55554 67788888888888888888


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhc
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELH  633 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~  633 (863)
                      +.+|.. +..+++|++|++++|. +..++...+..+++|++|++++|.+..+.
T Consensus        93 ~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  144 (220)
T 2v9t_B           93 TELPKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNLLSLYDNKLQTIA  144 (220)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CccCHhHccCCCCCCEEECCCCC-CCEeCHHHcCCCCCCCEEECCCCcCCEEC
Confidence            888776 5778888888888887 56665555888888888888887765544

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.47  E-value=6.5e-14  Score=148.94  Aligned_cols=196  Identities=15%  Similarity=0.056  Sum_probs=102.6

Q ss_pred             ceEEEeccCCcccc-CCC---C-CCCccEEEeeccccccc----chhhhhcCCCccEEeccCCcCcccc-chhhhccccc
Q 038405          502 DFRLSLWGSSIEYL-PET---P-CPHLQTLLVRFTVLEIF----PHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINL  571 (863)
Q Consensus       502 ~~~l~l~~~~~~~l-~~~---~-~~~Lr~L~l~~~~l~~l----~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L  571 (863)
                      ++.+.+.+|.+... |..   . +++|++|++++|.+...    +...+..+++|++|+|++| .+..+ |..++++++|
T Consensus        93 L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n-~l~~~~~~~~~~l~~L  171 (310)
T 4glp_A           93 LKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQA-HSPAFSCEQVRAFPAL  171 (310)
T ss_dssp             CCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECC-SSCCCCTTSCCCCTTC
T ss_pred             eeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCC-CcchhhHHHhccCCCC
Confidence            44555555544322 211   1 45555555555544431    1122234555555555555 33322 2345555555


Q ss_pred             ceeeccCCCccc---cchh--hhcccCccEEecCCCCCccccchh---hhcCCCCCceeeccCcchhhhccCCCCccccc
Q 038405          572 RCLNLSNTSIEE---LPSE--IMYLKNLKILLLDGMRHFHLIPAR---VFSSLLSLKVFSLFSTELIELHRMPPNQTTIL  643 (863)
Q Consensus       572 ~~L~L~~~~i~~---lP~~--i~~L~~L~~L~l~~~~~l~~lp~~---~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l  643 (863)
                      ++|++++|.+..   +|..  ++++++|++|++++|. +..+|..   .++.+++|++|++++|.+....+..       
T Consensus       172 ~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~-------  243 (310)
T 4glp_A          172 TSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALAAAGVQPHSLDLSHNSLRATVNPS-------  243 (310)
T ss_dssp             CEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSC-------
T ss_pred             CEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHHhcCCCCCEEECCCCCCCccchhh-------
Confidence            555555555432   2221  2455555555555554 3333321   2344555555555554433221110       


Q ss_pred             hhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCC
Q 038405          644 DELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTN  723 (863)
Q Consensus       644 ~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~  723 (863)
                                      +..          ...+++|+.|++++|.....+. .-.++|++|++++|.+++++.    +..
T Consensus       244 ----------------~~~----------~~~~~~L~~L~Ls~N~l~~lp~-~~~~~L~~L~Ls~N~l~~~~~----~~~  292 (310)
T 4glp_A          244 ----------------APR----------CMWSSALNSLNLSFAGLEQVPK-GLPAKLRVLDLSSNRLNRAPQ----PDE  292 (310)
T ss_dssp             ----------------CSS----------CCCCTTCCCEECCSSCCCSCCS-CCCSCCSCEECCSCCCCSCCC----TTS
T ss_pred             ----------------HHh----------ccCcCcCCEEECCCCCCCchhh-hhcCCCCEEECCCCcCCCCch----hhh
Confidence                            000          0112578889998888774433 113799999999999887633    346


Q ss_pred             CCCCCEEEEecCCC
Q 038405          724 FHNLHHLSIRVCPV  737 (863)
Q Consensus       724 l~~L~~L~L~~~~~  737 (863)
                      +++|+.|++++|+.
T Consensus       293 l~~L~~L~L~~N~l  306 (310)
T 4glp_A          293 LPEVDNLTLDGNPF  306 (310)
T ss_dssp             CCCCSCEECSSTTT
T ss_pred             CCCccEEECcCCCC
Confidence            89999999999964

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.46  E-value=5e-14  Score=145.58  Aligned_cols=97  Identities=16%  Similarity=0.193  Sum_probs=49.9

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG  601 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~  601 (863)
                      ++..+.+.++.+..++.  +..+++|++|++++| .+..+| .++.+++|++|++++|.|..+|. +.++++|++|++++
T Consensus        20 ~l~~l~l~~~~i~~~~~--~~~l~~L~~L~l~~n-~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~   94 (263)
T 1xeu_A           20 NAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNS-NIQSLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNR   94 (263)
T ss_dssp             HHHHHHHTCSCTTSEEC--HHHHTTCSEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCS
T ss_pred             HHHHHHhcCCCcccccc--hhhcCcCcEEECcCC-Ccccch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCC
Confidence            34444444444444442  445555555555555 455555 35555555555555555555554 55555555555555


Q ss_pred             CCCccccchhhhcCCCCCceeeccCc
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~  627 (863)
                      |. +..+|.  +.. ++|++|++++|
T Consensus        95 N~-l~~l~~--~~~-~~L~~L~L~~N  116 (263)
T 1xeu_A           95 NR-LKNLNG--IPS-ACLSRLFLDNN  116 (263)
T ss_dssp             SC-CSCCTT--CCC-SSCCEEECCSS
T ss_pred             Cc-cCCcCc--ccc-CcccEEEccCC
Confidence            54 444443  222 55555555544

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.46  E-value=3.4e-13  Score=153.72  Aligned_cols=179  Identities=20%  Similarity=0.248  Sum_probs=135.4

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~  580 (863)
                      +++.+++.++.+..+|...+++|++|++++|.+..+|    ..+++|++|+|++| .+..+|. +++  +|++|++++|.
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l~~~L~~L~Ls~N~l~~ip----~~l~~L~~L~Ls~N-~l~~ip~-l~~--~L~~L~Ls~N~  131 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNLPPQITVLEITQNALISLP----ELPASLEYLDACDN-RLSTLPE-LPA--SLKHLDVDNNQ  131 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCCCTTCSEEECCSSCCSCCC----CCCTTCCEEECCSS-CCSCCCC-CCT--TCCEEECCSSC
T ss_pred             CccEEEeCCCCCCccCHhHcCCCCEEECcCCCCcccc----cccCCCCEEEccCC-CCCCcch-hhc--CCCEEECCCCc
Confidence            5778999999998888877899999999999999888    34789999999999 7888888 765  99999999999


Q ss_pred             ccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEee
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL  660 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~  660 (863)
                      |+.+|.   .+++|++|++++|. +..+|.    .+++|++|++++|.+..++.  ..                      
T Consensus       132 l~~lp~---~l~~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N~L~~lp~--l~----------------------  179 (571)
T 3cvr_A          132 LTMLPE---LPALLEYINADNNQ-LTMLPE----LPTSLEVLSVRNNQLTFLPE--LP----------------------  179 (571)
T ss_dssp             CSCCCC---CCTTCCEEECCSSC-CSCCCC----CCTTCCEEECCSSCCSCCCC--CC----------------------
T ss_pred             CCCCCC---cCccccEEeCCCCc-cCcCCC----cCCCcCEEECCCCCCCCcch--hh----------------------
Confidence            999998   68999999999998 666876    57899999999876543221  10                      


Q ss_pred             cCchhhhhhhccccccccccEEEecccCCcccccccccCCc-------ceeEeccCcccccCCCCCCCCCCCCCCEEEEe
Q 038405          661 GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHL-------ETLNIVECSLERVDPTFNGWTNFHNLHHLSIR  733 (863)
Q Consensus       661 ~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L-------~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~  733 (863)
                                      ++|+.|++++|.....+.+.+  +|       +.|++++|.++.++.   .+..+++|+.|+|+
T Consensus       180 ----------------~~L~~L~Ls~N~L~~lp~~~~--~L~~~~~~L~~L~Ls~N~l~~lp~---~l~~l~~L~~L~L~  238 (571)
T 3cvr_A          180 ----------------ESLEALDVSTNLLESLPAVPV--RNHHSEETEIFFRCRENRITHIPE---NILSLDPTCTIILE  238 (571)
T ss_dssp             ----------------TTCCEEECCSSCCSSCCCCC----------CCEEEECCSSCCCCCCG---GGGGSCTTEEEECC
T ss_pred             ----------------CCCCEEECcCCCCCchhhHHH--hhhcccccceEEecCCCcceecCH---HHhcCCCCCEEEee
Confidence                            245566666665543333222  45       888888888776654   23457888888888


Q ss_pred             cCCCCCC
Q 038405          734 VCPVIRD  740 (863)
Q Consensus       734 ~~~~~~~  740 (863)
                      +|+....
T Consensus       239 ~N~l~~~  245 (571)
T 3cvr_A          239 DNPLSSR  245 (571)
T ss_dssp             SSSCCHH
T ss_pred             CCcCCCc
Confidence            8865443

>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=99.45  E-value=2.3e-13  Score=136.50  Aligned_cols=128  Identities=16%  Similarity=0.299  Sum_probs=90.7

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccc-hhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCc
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFP-HRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSI  581 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~-~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i  581 (863)
                      .+.+.++.+..+|....+.+++|++++|.+..++ ...|..+++|++|+|++| .+..+|. .++++++|++|+|++|.|
T Consensus        15 ~l~~s~n~l~~iP~~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~l   93 (220)
T 2v70_A           15 TVDCSNQKLNKIPEHIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAFEGASGVNEILLTSNRL   93 (220)
T ss_dssp             EEECCSSCCSSCCSCCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EeEeCCCCcccCccCCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCC-cCCEECHHHhCCCCCCCEEECCCCcc
Confidence            5677777777777666667777888877777763 355677778888888777 5655544 677777888888888877


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhc
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELH  633 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~  633 (863)
                      ..+|.. +..+++|++|++++|. +..+++..+.++++|++|++++|.+..+.
T Consensus        94 ~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  145 (220)
T 2v70_A           94 ENVQHKMFKGLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLYDNQITTVA  145 (220)
T ss_dssp             CCCCGGGGTTCSSCCEEECTTSC-CCCBCTTSSTTCTTCSEEECTTSCCCCBC
T ss_pred             CccCHhHhcCCcCCCEEECCCCc-CCeECHhHcCCCccCCEEECCCCcCCEEC
Confidence            777654 7777788888887776 55554444777778888887777665443

>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=99.45  E-value=3.9e-13  Score=132.46  Aligned_cols=103  Identities=16%  Similarity=0.143  Sum_probs=69.0

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccc-cchhhhcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE-LPSEIMYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~-lP~~i~~L~~L~~L~  598 (863)
                      +++|++|++++|.+..+|.  +..+++|++|++++| .+..++ .+..+++|++|++++|.+.. .|..++.+++|++|+
T Consensus        43 l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~n-~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           43 MNSLTYITLANINVTDLTG--IEYAHNIKDLTINNI-HATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHTCCEEEEESSCCSCCTT--GGGCTTCSEEEEESC-CCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEE
T ss_pred             cCCccEEeccCCCccChHH--HhcCCCCCEEEccCC-CCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEE
Confidence            5667777777776666662  667777777777777 555554 46677777777777777764 566677777777777


Q ss_pred             cCCCCCccccchhhhcCCCCCceeeccCc
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~~~  627 (863)
                      +++|......|.. ++++++|++|++++|
T Consensus       119 Ls~n~i~~~~~~~-l~~l~~L~~L~L~~n  146 (197)
T 4ezg_A          119 ISHSAHDDSILTK-INTLPKVNSIDLSYN  146 (197)
T ss_dssp             CCSSBCBGGGHHH-HTTCSSCCEEECCSC
T ss_pred             ecCCccCcHhHHH-HhhCCCCCEEEccCC
Confidence            7777633334444 667777777777655

>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=99.44  E-value=7.6e-14  Score=163.13  Aligned_cols=295  Identities=14%  Similarity=0.134  Sum_probs=144.2

Q ss_pred             ccceEEEeccCCccc-----cCCCC--CCCccEEEeecccccccch----hhhhcCCCccEEeccCCcCccccchhhhcc
Q 038405          500 REDFRLSLWGSSIEY-----LPETP--CPHLQTLLVRFTVLEIFPH----RFFESMGALKVLDLSYNLDLTQLPAEMGAL  568 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~-----l~~~~--~~~Lr~L~l~~~~l~~l~~----~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L  568 (863)
                      +.++.+.+.++.+..     ++...  +++|++|++++|. ..+..    ..+..+++|++|++++|..+..+|..+..+
T Consensus       156 ~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~  234 (594)
T 2p1m_B          156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRA  234 (594)
T ss_dssp             TTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHC
T ss_pred             CCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcC
Confidence            356666666555332     22222  5677777777664 11221    223445777777777765555566666666


Q ss_pred             cccceeeccCC-------------------------------CccccchhhhcccCccEEecCCCCCccccchhhhcCCC
Q 038405          569 INLRCLNLSNT-------------------------------SIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLL  617 (863)
Q Consensus       569 ~~L~~L~L~~~-------------------------------~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~  617 (863)
                      ++|++|+++.+                               ....+|..+..+++|++|++++|.........++.+++
T Consensus       235 ~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~  314 (594)
T 2p1m_B          235 PQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCP  314 (594)
T ss_dssp             TTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCT
T ss_pred             CcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCC
Confidence            66666664433                               11233444445667777777776622111222345667


Q ss_pred             CCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEee---------cCchhhhhhhccccccccccEEEecccC
Q 038405          618 SLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL---------GSASALFKINFSWKLCSCIKRLTIMHNL  688 (863)
Q Consensus       618 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~---------~~~~~l~~l~~~~~~~~~L~~L~l~~~~  688 (863)
                      +|++|++.+| +.         ...+..+.....+|+.+.+.-         ..... ..+......+++|+.|.+..+.
T Consensus       315 ~L~~L~l~~~-~~---------~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~-~~l~~l~~~~~~L~~L~~~~~~  383 (594)
T 2p1m_B          315 KLQRLWVLDY-IE---------DAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTE-QGLVSVSMGCPKLESVLYFCRQ  383 (594)
T ss_dssp             TCCEEEEEGG-GH---------HHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCH-HHHHHHHHHCTTCCEEEEEESC
T ss_pred             CcCEEeCcCc-cC---------HHHHHHHHHhCCCCCEEEEecCcccccccCCCCCH-HHHHHHHHhchhHHHHHHhcCC
Confidence            7777777655 11         111112211111444444411         01111 0111111224567777555444


Q ss_pred             Cccccc--c-cccCCcceeEec--c---Cc-ccccCCCC---CCCCCCCCCCEEEEecCCCCCC--Cccccc-CCCcceE
Q 038405          689 DSHSID--L-RNMMHLETLNIV--E---CS-LERVDPTF---NGWTNFHNLHHLSIRVCPVIRD--LTWIRE-APNLQFL  753 (863)
Q Consensus       689 ~~~~~~--l-~~~~~L~~L~l~--~---~~-l~~~~~~~---~~~~~l~~L~~L~L~~~~~~~~--l~~l~~-l~~L~~L  753 (863)
                      ......  + ..+++|++|+++  +   |. ++..+...   .....+++|+.|++++  .+..  ++.+.. +++|+.|
T Consensus       384 l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~--~l~~~~~~~l~~~~~~L~~L  461 (594)
T 2p1m_B          384 MTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG--LLTDKVFEYIGTYAKKMEML  461 (594)
T ss_dssp             CCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS--SCCHHHHHHHHHHCTTCCEE
T ss_pred             cCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC--cccHHHHHHHHHhchhccEe
Confidence            332211  2 246777777777  2   22 33221100   0022456777777755  2221  123333 7777777


Q ss_pred             eeccCcchhhhhcccCCccccccCccCcccceecccccccccccc--cCccCCCCccEEeeccCCC
Q 038405          754 SLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRIC--HGTMPFPSLQNVSVTNCPN  817 (863)
Q Consensus       754 ~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~--~~~~~~~~L~~L~i~~C~~  817 (863)
                      +|++|......+.        .....+++|+.|+|++|+. ....  .....+++|+.|++++|+.
T Consensus       462 ~L~~~~i~~~~~~--------~l~~~~~~L~~L~L~~n~~-~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          462 SVAFAGDSDLGMH--------HVLSGCDSLRKLEIRDCPF-GDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             EEESCCSSHHHHH--------HHHHHCTTCCEEEEESCSC-CHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             eccCCCCcHHHHH--------HHHhcCCCcCEEECcCCCC-cHHHHHHHHHhCCCCCEEeeeCCCC
Confidence            7777763222111        1113477888888887764 2211  1223467888888888864

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.44  E-value=5.8e-13  Score=116.38  Aligned_cols=82  Identities=7%  Similarity=0.137  Sum_probs=71.3

Q ss_pred             chhh-hhhHHHHHhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhccHHHHHHHHHHHHHHHHHH
Q 038405            6 PILD-IFTRLWDCSAAKSSYIRHLEDNLKSLSEKKSQIEDLNEDIKRRVETEEQQQQ-RKRKKVVEGWLNAVESEIKEVD   83 (863)
Q Consensus         6 ~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~a~~~~~-~~~~~~~~~wl~~~~~~~~~~~   83 (863)
                      |+++ +++||.+++.+|+..+.+++++++.|++||+.|+++|.+       |+.+ . ...+++++.|+++||+++||+|
T Consensus         1 a~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~d-------a~~~-~~~~~d~~vk~W~~~vrdlaYD~E   72 (115)
T 3qfl_A            1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIK-------IGEV-PREQLDSQDKLWADEVRELSYVIE   72 (115)
T ss_dssp             CTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTS-CGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHHh-ccccCCHHHHHHHHHHHHHHHHHH
Confidence            4677 999999999999999999999999999999999999664       4443 1 2347899999999999999999


Q ss_pred             HHHHhhhhhhhh
Q 038405           84 GILQKGCQEIEK   95 (863)
Q Consensus        84 d~ld~~~~~~~~   95 (863)
                      |++|+|.++...
T Consensus        73 D~iD~f~~~~~~   84 (115)
T 3qfl_A           73 DVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc
Confidence            999999988753

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.43  E-value=2.2e-13  Score=140.69  Aligned_cols=121  Identities=19%  Similarity=0.227  Sum_probs=102.1

Q ss_pred             ccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          500 REDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      .++.++.+..+.+..++... +++|++|++++|.+..++.  +..+++|++|++++| .+..+|. ++++++|++|++++
T Consensus        19 ~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~L~~N-~i~~~~~-l~~l~~L~~L~L~~   94 (263)
T 1xeu_A           19 ANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAG--MQFFTNLKELHLSHN-QISDLSP-LKDLTKLEELSVNR   94 (263)
T ss_dssp             HHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCS
T ss_pred             HHHHHHHhcCCCcccccchhhcCcCcEEECcCCCcccchH--HhhCCCCCEEECCCC-ccCCChh-hccCCCCCEEECCC
Confidence            34556667777777777444 8999999999999998883  889999999999999 8888887 99999999999999


Q ss_pred             CCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          579 TSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       579 ~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      |.++.+|....  ++|++|++++|. +..+|.  ++++++|++|++++|.+
T Consensus        95 N~l~~l~~~~~--~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~Ls~N~i  140 (263)
T 1xeu_A           95 NRLKNLNGIPS--ACLSRLFLDNNE-LRDTDS--LIHLKNLEILSIRNNKL  140 (263)
T ss_dssp             SCCSCCTTCCC--SSCCEEECCSSC-CSBSGG--GTTCTTCCEEECTTSCC
T ss_pred             CccCCcCcccc--CcccEEEccCCc-cCCChh--hcCcccccEEECCCCcC
Confidence            99999986444  999999999997 666663  88999999999987653

>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=99.43  E-value=4.4e-13  Score=135.44  Aligned_cols=123  Identities=24%  Similarity=0.283  Sum_probs=67.2

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCCccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSIEE  583 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~i~~  583 (863)
                      +...++.+..+|....++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. +..+++|++|+|++|.|+.
T Consensus        24 v~c~~~~l~~ip~~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~~~~~~l~~L~~L~Ls~N~l~~  102 (229)
T 3e6j_A           24 VDCRSKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSN-QLGALPVGVFDSLTQLTVLDLGTNQLTV  102 (229)
T ss_dssp             EECTTSCCSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCC
T ss_pred             eEccCCCcCccCCCCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCC-CCCCcChhhcccCCCcCEEECCCCcCCc
Confidence            444455555555544555556666555555554444555555666666555 44444432 3555556666666555555


Q ss_pred             cchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          584 LPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       584 lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      +|.. +..+++|++|++++|. +..+|.. +..+++|++|++++|.+.
T Consensus       103 l~~~~~~~l~~L~~L~Ls~N~-l~~lp~~-~~~l~~L~~L~L~~N~l~  148 (229)
T 3e6j_A          103 LPSAVFDRLVHLKELFMCCNK-LTELPRG-IERLTHLTHLALDQNQLK  148 (229)
T ss_dssp             CCTTTTTTCTTCCEEECCSSC-CCSCCTT-GGGCTTCSEEECCSSCCC
T ss_pred             cChhHhCcchhhCeEeccCCc-ccccCcc-cccCCCCCEEECCCCcCC
Confidence            5443 3555556666665554 4455554 455555666655555443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.42  E-value=6.1e-13  Score=134.38  Aligned_cols=128  Identities=31%  Similarity=0.395  Sum_probs=116.1

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      ..++.+.+.+|.+..++...   +++|++|++++|.+..+|...|..+++|++|+|++| .+..+|.. +..+++|++|+
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~~l~~L~~L~  118 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN-QLTVLPSAVFDRLVHLKELF  118 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC-cCCccChhHhCcchhhCeEe
Confidence            57899999999999885432   899999999999999999988999999999999999 77777664 68999999999


Q ss_pred             ccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          576 LSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       576 L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      |++|.|..+|..+..+++|++|++++|. +..+|...+..+++|++|++.+|.+
T Consensus       119 Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~  171 (229)
T 3e6j_A          119 MCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGNPW  171 (229)
T ss_dssp             CCSSCCCSCCTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECTTSCB
T ss_pred             ccCCcccccCcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCCc
Confidence            9999999999999999999999999997 7788877799999999999998764

>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=99.41  E-value=6.5e-14  Score=163.72  Aligned_cols=126  Identities=15%  Similarity=0.035  Sum_probs=81.0

Q ss_pred             ccceEEEeccCCccccC--CC--CCCCccEEEeecc-ccccc-chhhhhcCCCccEEeccCCcCccc-----cchhhhcc
Q 038405          500 REDFRLSLWGSSIEYLP--ET--PCPHLQTLLVRFT-VLEIF-PHRFFESMGALKVLDLSYNLDLTQ-----LPAEMGAL  568 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~--~~--~~~~Lr~L~l~~~-~l~~l-~~~~~~~l~~L~~L~Ls~~~~i~~-----lp~~i~~L  568 (863)
                      +.++++.+.++.+....  ..  .+++|++|.+.+| .+... ...++..+++|++|+|++|. +..     ++.....+
T Consensus       105 ~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~~  183 (594)
T 2p1m_B          105 TWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESD-VDDVSGHWLSHFPDTY  183 (594)
T ss_dssp             TTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCGGGGGGSCTTC
T ss_pred             CCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcchHHHHHHhhcC
Confidence            46777888776654321  11  1678888888887 44331 22335578888888888883 332     33333466


Q ss_pred             cccceeeccCCC--cc--ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCc
Q 038405          569 INLRCLNLSNTS--IE--ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       569 ~~L~~L~L~~~~--i~--~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~  627 (863)
                      ++|++|++++|.  +.  .++.-+.++++|++|++++|..+..+|.. +.++++|++|++..+
T Consensus       184 ~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~-~~~~~~L~~L~l~~~  245 (594)
T 2p1m_B          184 TSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATL-LQRAPQLEELGTGGY  245 (594)
T ss_dssp             CCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHH-HHHCTTCSEEECSBC
T ss_pred             CcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHH-HhcCCcceEcccccc
Confidence            788888888875  22  23333456788888888888656666654 778888888886543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.41  E-value=6.1e-13  Score=144.56  Aligned_cols=127  Identities=20%  Similarity=0.227  Sum_probs=107.7

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhh-cCCCccEEeccCCcCccccc-hhhhcccccceeeccCCC
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFE-SMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTS  580 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~-~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~  580 (863)
                      +.+.+.++.+..+|....+.++.|++++|.+..++...|. .+++|++|+|++| .+..+| ..+.++++|++|+|++|.
T Consensus        21 ~~l~c~~~~l~~iP~~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N~   99 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSNH   99 (361)
T ss_dssp             TEEECCSSCCSSCCSSCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEeCCCCcCccCccCCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCC-cCCccChhhccCCCCCCEEECCCCc
Confidence            4677888888888887788899999999999999888777 8999999999999 677666 468899999999999999


Q ss_pred             ccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhh
Q 038405          581 IEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIE  631 (863)
Q Consensus       581 i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~  631 (863)
                      |..+|.. +..+++|++|+|++|. +..++...|.++++|++|++++|.+..
T Consensus       100 l~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~L~~N~l~~  150 (361)
T 2xot_A          100 LHTLDEFLFSDLQALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYLSQNQISR  150 (361)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSCCCS
T ss_pred             CCcCCHHHhCCCcCCCEEECCCCc-ccEECHHHhCCcccCCEEECCCCcCCe
Confidence            9988764 8899999999999998 666655568999999999999876543

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

Probab=99.39  E-value=2e-12  Score=128.54  Aligned_cols=145  Identities=26%  Similarity=0.299  Sum_probs=122.1

Q ss_pred             cccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhccccccee
Q 038405          499 WREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCL  574 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L  574 (863)
                      ...++.+.+.++.+..++...   +++|++|++++|.+..++...|..+++|++|++++| .+..+|.. ++++++|++|
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L  105 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTN-QLQSLPNGVFDKLTQLKEL  105 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCC-cCCccCHhHhcCccCCCEE
Confidence            347899999999999887743   899999999999999999988899999999999999 77777764 6899999999


Q ss_pred             eccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhccc
Q 038405          575 NLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQ  652 (863)
Q Consensus       575 ~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~  652 (863)
                      ++++|.|..+|.. +.++++|++|++++|. +..+|...+.++++|++|++.+|.+..       ....++.|....|.
T Consensus       106 ~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~~-------~~~~l~~L~~~~n~  176 (208)
T 2o6s_A          106 ALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPWDC-------TCPGIRYLSEWINK  176 (208)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCBCC-------CTTTTHHHHHHHHH
T ss_pred             EcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCeec-------CCCCHHHHHHHHHh
Confidence            9999999999876 7899999999999997 677887778999999999999885431       23455555554433

>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=99.39  E-value=8.3e-13  Score=130.07  Aligned_cols=129  Identities=14%  Similarity=0.153  Sum_probs=110.1

Q ss_pred             cccccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcc-ccchhhhccccccee
Q 038405          497 DSWREDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLT-QLPAEMGALINLRCL  574 (863)
Q Consensus       497 ~~~~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~-~lp~~i~~L~~L~~L  574 (863)
                      ..+..++.+.+.++.+..++... +++|++|++++|.+..++.  +..+++|++|++++| .+. ..|..++.+++|++|
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~l~~n-~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERLRIMGK-DVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCGG--GTTCTTCCEEEEECT-TCBGGGSCCCTTCTTCCEE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcchh--hhcCCCCCEEEeECC-ccCcccChhhcCCCCCCEE
Confidence            34567889999999999888544 9999999999998777653  788999999999999 555 478889999999999


Q ss_pred             eccCCCccc-cchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          575 NLSNTSIEE-LPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       575 ~L~~~~i~~-lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ++++|.+.. .|..++.+++|++|++++|..+..+| . +.++++|++|++++|.+.
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~-l~~l~~L~~L~l~~n~i~  172 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-P-LKTLPELKSLNIQFDGVH  172 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-G-GGGCSSCCEEECTTBCCC
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-h-hcCCCCCCEEECCCCCCc
Confidence            999999985 67789999999999999997677777 3 889999999999987653

>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=99.37  E-value=3.1e-12  Score=128.28  Aligned_cols=128  Identities=22%  Similarity=0.304  Sum_probs=114.9

Q ss_pred             ccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceee
Q 038405          500 REDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLN  575 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~  575 (863)
                      ..++.+.+.+|.+..++...   +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. +.++++|++|+
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~f~~l~~L~~L~  110 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN-KITELPKSLFEGLFSLQLLL  110 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS-CCCCCCTTTTTTCTTCCEEE
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC-cCCccCHhHccCCCCCCEEE
Confidence            57899999999999988643   899999999999999997777999999999999999 78888875 58899999999


Q ss_pred             ccCCCccccc-hhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          576 LSNTSIEELP-SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       576 L~~~~i~~lP-~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      |++|.|..++ ..+..+++|++|++++|. +..+|.+.+..+++|++|++.+|.+
T Consensus       111 L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B          111 LNANKINCLRVDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CCCCCCCEeCHHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCCCc
Confidence            9999999884 569999999999999998 7778777799999999999998865

>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=99.37  E-value=1.4e-12  Score=124.85  Aligned_cols=129  Identities=23%  Similarity=0.159  Sum_probs=111.0

Q ss_pred             ccceEEEeccCCcc--ccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccc-cchhhhccccccee
Q 038405          500 REDFRLSLWGSSIE--YLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ-LPAEMGALINLRCL  574 (863)
Q Consensus       500 ~~~~~l~l~~~~~~--~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~~L~~L~~L  574 (863)
                      ..++.+.+.++.+.  .+|...  +++|++|++++|.+..+  ..+..+++|++|++++| .+.. +|..++++++|++|
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L  100 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSEN-RIFGGLDMLAEKLPNLTHL  100 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESC-CCCSCCCHHHHHCTTCCEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCC-cCchHHHHHHhhCCCCCEE
Confidence            47889999999988  788774  89999999999988887  34889999999999999 6665 88888889999999


Q ss_pred             eccCCCccccc--hhhhcccCccEEecCCCCCccccch---hhhcCCCCCceeeccCcchhhh
Q 038405          575 NLSNTSIEELP--SEIMYLKNLKILLLDGMRHFHLIPA---RVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       575 ~L~~~~i~~lP--~~i~~L~~L~~L~l~~~~~l~~lp~---~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      ++++|.|+.+|  ..+..+++|++|++++|. +..+|.   ..+..+++|++|++.+|...+.
T Consensus       101 ~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~  162 (168)
T 2ell_A          101 NLSGNKLKDISTLEPLKKLECLKSLDLFNCE-VTNLNDYRESVFKLLPQLTYLDGYDREDQEA  162 (168)
T ss_dssp             ECBSSSCCSSGGGGGGSSCSCCCEEECCSSG-GGTSTTHHHHHHTTCSSCCEETTEETTSCBC
T ss_pred             eccCCccCcchhHHHHhcCCCCCEEEeeCCc-CcchHHHHHHHHHhCccCcEecCCCCChhhc
Confidence            99999999987  679999999999999997 667776   4589999999999998765443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.36  E-value=1.4e-12  Score=141.82  Aligned_cols=103  Identities=29%  Similarity=0.388  Sum_probs=83.5

Q ss_pred             ccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hh-cccccceeeccCCCccccch-hhhcccCccEEec
Q 038405          523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MG-ALINLRCLNLSNTSIEELPS-EIMYLKNLKILLL  599 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~-~L~~L~~L~L~~~~i~~lP~-~i~~L~~L~~L~l  599 (863)
                      -++++++++.+..+|..+   ...+++|+|++| .+..+|.. +. ++.+|++|+|++|.|..+|. .+.++++|++|+|
T Consensus        20 ~~~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           20 SNILSCSKQQLPNVPQSL---PSYTALLDLSHN-NLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TTEEECCSSCCSSCCSSC---CTTCSEEECCSS-CCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCCcCccCccC---CCCCCEEECCCC-CCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEEC
Confidence            367888888888888753   356899999999 77777654 44 88999999999999998875 4889999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ++|. +..+|...|.++++|++|++++|.+.
T Consensus        96 s~N~-l~~~~~~~~~~l~~L~~L~L~~N~i~  125 (361)
T 2xot_A           96 SSNH-LHTLDEFLFSDLQALEVLLLYNNHIV  125 (361)
T ss_dssp             CSSC-CCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             CCCc-CCcCCHHHhCCCcCCCEEECCCCccc
Confidence            9987 77777777888999999999876543

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

Probab=99.35  E-value=5e-14  Score=161.54  Aligned_cols=102  Identities=20%  Similarity=0.185  Sum_probs=67.4

Q ss_pred             ccccEEEecccCCccccc-ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCC--CcccccCCCcceE
Q 038405          677 SCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRD--LTWIREAPNLQFL  753 (863)
Q Consensus       677 ~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~--l~~l~~l~~L~~L  753 (863)
                      ++|+.|++++|.....+. +..+++|+.|++++|.+++++    .+..+++|+.|+|++|.....  +..++.+++|+.|
T Consensus       463 ~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp----~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L  538 (567)
T 1dce_A          463 LLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD----GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLL  538 (567)
T ss_dssp             TTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG----GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEE
T ss_pred             ccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc----ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEE
Confidence            356666666665553332 677788888888888877764    345788888888888866555  4567888888888


Q ss_pred             eeccCcchhhhhcccCCccccccCccCcccceecc
Q 038405          754 SLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDL  788 (863)
Q Consensus       754 ~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L  788 (863)
                      +|++|.. ..+|...     ......+|+|+.|++
T Consensus       539 ~L~~N~l-~~~~~~~-----~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          539 NLQGNSL-CQEEGIQ-----ERLAEMLPSVSSILT  567 (567)
T ss_dssp             ECTTSGG-GGSSSCT-----THHHHHCTTCSEEEC
T ss_pred             EecCCcC-CCCccHH-----HHHHHHCcccCccCC
Confidence            8888874 3333211     112234778887753

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.34  E-value=2.1e-12  Score=120.84  Aligned_cols=122  Identities=26%  Similarity=0.211  Sum_probs=101.8

Q ss_pred             ccceEEEeccCCcc--ccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccc-cchhhhccccccee
Q 038405          500 REDFRLSLWGSSIE--YLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ-LPAEMGALINLRCL  574 (863)
Q Consensus       500 ~~~~~l~l~~~~~~--~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~~L~~L~~L  574 (863)
                      ..++.+.+.++.+.  .+|...  +++|++|++++|.+..+  ..+..+++|++|++++| .+.. +|..++.+++|++|
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDN-RVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSS-CCCSCTHHHHHHCTTCCEE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCC-cccchHHHHhhhCCCCCEE
Confidence            46888999998887  677664  88999999999988877  34788999999999999 5665 88888889999999


Q ss_pred             eccCCCccccc--hhhhcccCccEEecCCCCCccccch---hhhcCCCCCceeecc
Q 038405          575 NLSNTSIEELP--SEIMYLKNLKILLLDGMRHFHLIPA---RVFSSLLSLKVFSLF  625 (863)
Q Consensus       575 ~L~~~~i~~lP--~~i~~L~~L~~L~l~~~~~l~~lp~---~~i~~L~~L~~L~l~  625 (863)
                      ++++|.+..+|  ..++.+++|++|++++|. +..+|.   ..++.+++|++|+++
T Consensus        94 ~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           94 NLSGNKIKDLSTIEPLKKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             ECTTSCCCSHHHHGGGGGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             ECCCCcCCChHHHHHHhhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCcccccCC
Confidence            99999998875  778999999999999987 666665   458889999999875

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

Probab=99.34  E-value=6.5e-14  Score=160.60  Aligned_cols=120  Identities=18%  Similarity=0.200  Sum_probs=90.7

Q ss_pred             cccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeecc
Q 038405          678 CIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN  757 (863)
Q Consensus       678 ~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~  757 (863)
                      .|+.|++++|.....+.+..+++|+.|++++|.++.++.   .+..+++|+.|+|++|.. +.+|.++.+++|+.|+|++
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~---~~~~l~~L~~L~Ls~N~l-~~lp~l~~l~~L~~L~Ls~  517 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPP---ALAALRCLEVLQASDNAL-ENVDGVANLPRLQELLLCN  517 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCG---GGGGCTTCCEEECCSSCC-CCCGGGTTCSSCCEEECCS
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCcccccccch---hhhcCCCCCEEECCCCCC-CCCcccCCCCCCcEEECCC
Confidence            488899999988776668999999999999999887654   466899999999999964 4577899999999999999


Q ss_pred             Ccchhhh-hcccCCccccccCccCcccceecccccccccccccCcc----CCCCccEEe
Q 038405          758 CQALSEI-IESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTM----PFPSLQNVS  811 (863)
Q Consensus       758 ~~~l~~i-~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~----~~~~L~~L~  811 (863)
                      |...... |         .....+++|+.|+|+++ .++.++....    .+|+|+.|+
T Consensus       518 N~l~~~~~p---------~~l~~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          518 NRLQQSAAI---------QPLVSCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             SCCCSSSTT---------GGGGGCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCCc---------HHHhcCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence            8743221 3         24567899999999885 3555443221    256666553

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.34  E-value=4.8e-12  Score=123.85  Aligned_cols=124  Identities=21%  Similarity=0.324  Sum_probs=110.5

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i  581 (863)
                      +.+.+.++.+..+|....++|++|++++|.+..+|. .|..+++|++|+|++| .+..++ ..|.++++|++|+|++|.|
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~l   90 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGIPRDVTELYLDGNQFTLVPK-ELSNYKHLTLIDLSNN-RISTLSNQSFSNMTQLLTLILSYNRL   90 (193)
T ss_dssp             TEEECTTSCCSSCCSCCCTTCCEEECCSSCCCSCCG-GGGGCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEcCCCCCCcCCCCCCCCCCEEECCCCcCchhHH-HhhcccCCCEEECCCC-cCCEeCHhHccCCCCCCEEECCCCcc
Confidence            467888889999998778899999999999999985 5899999999999999 677665 5689999999999999999


Q ss_pred             cccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          582 EELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       582 ~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      +.+|. .+..+++|++|++++|. +..+|.+.+..+++|++|++.+|.+
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CEeCHHHhCCCCCCCEEECCCCC-CCeeChhhhhcCccccEEEeCCCCe
Confidence            99976 58999999999999998 7788887799999999999998764

>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=99.34  E-value=3.8e-12  Score=127.60  Aligned_cols=129  Identities=19%  Similarity=0.249  Sum_probs=112.1

Q ss_pred             ccceEEEeccCCccccCCC---C-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhccccccee
Q 038405          500 REDFRLSLWGSSIEYLPET---P-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCL  574 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~---~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L  574 (863)
                      ..++.+.+.+|.+..++..   . +++|++|++++|.+..+++..|..+++|++|+|++| .+..+|. .++++++|++|
T Consensus        32 ~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L  110 (220)
T 2v70_A           32 QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSN-RLENVQHKMFKGLESLKTL  110 (220)
T ss_dssp             TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCCCCGGGGTTCSSCCEE
T ss_pred             CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCC-ccCccCHhHhcCCcCCCEE
Confidence            3567999999999988532   2 899999999999999999888999999999999999 6666655 58999999999


Q ss_pred             eccCCCcccc-chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          575 NLSNTSIEEL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       575 ~L~~~~i~~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      +|++|.|..+ |..+..+++|++|++++|. +..+++..+..+++|++|++.+|.+.
T Consensus       111 ~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A          111 MLRSNRITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             ECTTSCCCCBCTTSSTTCTTCSEEECTTSC-CCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             ECCCCcCCeECHhHcCCCccCCEEECCCCc-CCEECHHHhcCCCCCCEEEecCcCCc
Confidence            9999999988 5679999999999999998 66665555999999999999988653

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.34  E-value=3e-12  Score=125.40  Aligned_cols=126  Identities=23%  Similarity=0.295  Sum_probs=109.9

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchh-hhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCC
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHR-FFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~-~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~  580 (863)
                      +.+.+.++.+..+|....+++++|++++|.+..++.. +|..+++|++|+|++| .+..+ |..++++++|++|+|++|.
T Consensus        11 ~~l~~s~~~l~~ip~~~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSCCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEcCCCCcCcCccCCCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCC-CCCCcCHhHcCCcccCCEEECCCCc
Confidence            5788889999999987778999999999999988864 5899999999999999 66655 7889999999999999999


Q ss_pred             ccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          581 IEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       581 i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      |+.+|.. +..+++|++|++++|. +..+++..+..+++|++|++.+|.+.
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           90 IKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CCccCHHHhcCCCCCCEEECCCCc-CCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            9998765 8899999999999998 55554445899999999999988653

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.33  E-value=4.9e-12  Score=122.14  Aligned_cols=125  Identities=25%  Similarity=0.365  Sum_probs=111.5

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~i  581 (863)
                      +.+.+.++.+..+|....++|++|++++|.+..++...|..+++|++|++++| .+..+|.. ++++++|++|++++|.|
T Consensus        10 ~~l~~~~~~l~~~p~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~l   88 (177)
T 2o6r_A           10 TEIRCNSKGLTSVPTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHENKL   88 (177)
T ss_dssp             TEEECCSSCCSSCCTTCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCCccCCCCCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCC-cceEeChhHccCCCccCEEECCCCCc
Confidence            46778888888888777899999999999999999888899999999999999 77777764 68999999999999999


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      +.+|.. +.++++|++|++++|. +..+|...+..+++|++|++.+|.+
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           89 QSLPNGVFDKLTQLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             cccCHHHhhCCcccCEEECcCCc-ceEeCHHHhcCCcccCEEEecCCCe
Confidence            999876 6899999999999997 7788888778999999999998864

>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=99.31  E-value=5.6e-11  Score=130.46  Aligned_cols=282  Identities=12%  Similarity=-0.001  Sum_probs=171.8

Q ss_pred             ccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhccccc----cCC-CCEEEEEEeCCCC-CHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDV----NHC-FDLVIFVAVSKEG-NLEKI  222 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~----~~~-F~~~~wv~~~~~~-~~~~~  222 (863)
                      +.++||+++++++.+++..    ...+.+.|+|++|+||||||+.+++.....    ... ....+|++..... +...+
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            6799999999999987743    446789999999999999999999875211    011 3456788877766 78888


Q ss_pred             HHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc--cccc-cccCCCCCCCeEEEEeecchhhh--
Q 038405          223 QEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD--LSKT-GVSLSDCQNGSKIVFTTRSEEVC--  297 (863)
Q Consensus       223 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~~-~~~l~~~~~gs~iivTTr~~~v~--  297 (863)
                      ...++..+..........+.......+.+.++.++.+|||||++....  +... ...+.....+..||+||+.....  
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~~  179 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDY  179 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHhh
Confidence            888888772221111233345667777778877767999999986432  1122 11221111678899999875321  


Q ss_pred             --------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcC---CChH-HHHHHHHHH--h---CCC
Q 038405          298 --------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECK---GLPL-ALITIARAM--S---SRR  354 (863)
Q Consensus       298 --------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~l--~---~~~  354 (863)
                                    +.+++.++..++|...+.... ....-..+..+.+++.++   |.|. |+..+-...  .   ..-
T Consensus       180 l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i  258 (384)
T 2qby_B          180 MEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGL-IKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGII  258 (384)
T ss_dssp             SCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTS-CTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCC
T ss_pred             hCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhc-ccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCcc
Confidence                          788999999999998753100 001112456778888887   8876 444433332  2   124


Q ss_pred             ChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCCCCCccchHHHHHHHHhcCCCCCccchh
Q 038405          355 SPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPEENNIRKDELIDLWIGEGFLSDFRSIT  434 (863)
Q Consensus       355 ~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~~~~i~~~~Li~~wiaeg~i~~~~~~~  434 (863)
                      +.+.+..+++....             ..+.-+++.|+++ .+..+..++....+..+. +.....--..| ...     
T Consensus       259 ~~~~v~~~~~~~~~-------------~~~~~~~~~l~~~-~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~~-----  317 (384)
T 2qby_B          259 RKEHVDKAIVDYEQ-------------ERLIEAVKALPFH-YKLALRSLIESEDVMSAH-KMYTDLCNKFK-QKP-----  317 (384)
T ss_dssp             CHHHHHHHHHHHHH-------------HHHHHHHHSSCHH-HHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CCC-----
T ss_pred             CHHHHHHHHHHHhc-------------chHHHHHHcCCHH-HHHHHHHHHHhcccChHH-HHHHHHHHHcC-CCC-----
Confidence            56777777664421             2344566778875 666665555511101111 11111111122 111     


Q ss_pred             HHhhhHHHHHHHHHHhcccccC
Q 038405          435 TARNQGEYIIGSLKLACLLESG  456 (863)
Q Consensus       435 ~~~~~~~~~~~~L~~~~ll~~~  456 (863)
                      ........++..|...++++..
T Consensus       318 ~~~~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          318 LSYRRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCHHHHHHHHHHHHhCCCEEEE
Confidence            1224556789999999999863

>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=99.31  E-value=3.3e-12  Score=123.26  Aligned_cols=128  Identities=20%  Similarity=0.184  Sum_probs=106.2

Q ss_pred             cccceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhh-hcccccceee
Q 038405          499 WREDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEM-GALINLRCLN  575 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i-~~L~~L~~L~  575 (863)
                      ...++.+.+.+|.+..++...  +++|++|++++|.+..++  .+..+++|++|++++| .+..+|..+ +.+++|++|+
T Consensus        18 ~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~~--~l~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~   94 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLD--GFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTELI   94 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEEC--CCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCEEE
T ss_pred             cCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCccc--ccccCCCCCEEECCCC-cccccCcchhhcCCCCCEEE
Confidence            347888999999988886654  459999999999888873  3788999999999999 777887554 8899999999


Q ss_pred             ccCCCccccch--hhhcccCccEEecCCCCCccccchh---hhcCCCCCceeeccCcchh
Q 038405          576 LSNTSIEELPS--EIMYLKNLKILLLDGMRHFHLIPAR---VFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       576 L~~~~i~~lP~--~i~~L~~L~~L~l~~~~~l~~lp~~---~i~~L~~L~~L~l~~~~~~  630 (863)
                      +++|.|..+|.  .+..+++|++|++++|. +..+|..   ++..+++|++|++..|...
T Consensus        95 L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           95 LTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             CCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             CCCCcCCcchhhHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcCCHH
Confidence            99999999987  78899999999999997 6667764   5788999999999877643

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.25  E-value=4e-12  Score=150.50  Aligned_cols=88  Identities=31%  Similarity=0.357  Sum_probs=44.4

Q ss_pred             hhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCC
Q 038405          539 RFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLS  618 (863)
Q Consensus       539 ~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~  618 (863)
                      ..+..++.|++|+|++| .+..+|..+.++++|++|+|++|.|+.+|..+++|++|++|+|++|. +..+|.. |++|++
T Consensus       218 ~~~~~l~~L~~L~Ls~n-~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp~~-~~~l~~  294 (727)
T 4b8c_D          218 DSKYDDQLWHALDLSNL-QIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAE-LGSCFQ  294 (727)
T ss_dssp             ----CCCCCCEEECTTS-CCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSC-CSSCCSS-GGGGTT
T ss_pred             hhhccCCCCcEEECCCC-CCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCc-CCccChh-hcCCCC
Confidence            33445555555555555 44455555555555555555555555555555555555555555554 3345544 455555


Q ss_pred             CceeeccCcch
Q 038405          619 LKVFSLFSTEL  629 (863)
Q Consensus       619 L~~L~l~~~~~  629 (863)
                      |++|++++|.+
T Consensus       295 L~~L~L~~N~l  305 (727)
T 4b8c_D          295 LKYFYFFDNMV  305 (727)
T ss_dssp             CSEEECCSSCC
T ss_pred             CCEEECCCCCC
Confidence            55555555443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.24  E-value=2.3e-10  Score=125.62  Aligned_cols=280  Identities=14%  Similarity=0.084  Sum_probs=171.0

Q ss_pred             ccccchhhHHHHHHHhhcc----CCceEEEEEcCCCChHHHHhhhhhhcccccc---CCCCEEEEEEeCCCCCHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVN---HCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      +.++||+++++++.+++..    ...+.+.|+|++|+||||+|+.+++......   +.-...+|++.....+...+...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            5789999999999998843    4567899999999999999999998762110   11235678888888888899999


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEcccccccc----ccccc---ccCCCC--CCCeEEEEeecch
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERLD----LSKTG---VSLSDC--QNGSKIVFTTRSE  294 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~----~~~~~---~~l~~~--~~gs~iivTTr~~  294 (863)
                      ++.+++..... ...+..+....+.+.+.  +++.+||||+++....    .+.+.   ......  ..+..+|.||+..
T Consensus        99 l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~  177 (387)
T 2v1u_A           99 IAEAVGVRVPF-TGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSL  177 (387)
T ss_dssp             HHHHHSCCCCS-SCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCS
T ss_pred             HHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCC
Confidence            99988754321 22334555666666663  4688999999986432    12221   111111  3456777777765


Q ss_pred             hhh-----------------cccCCHHHHHHHHhHhhCc--cccCCCCChHHHHHHHHHHcC---CChH-HHHHHHHHHh
Q 038405          295 EVC-----------------VECLSPEAALDLFRYKVGE--DVFNSHPEIPTLAQAVVGECK---GLPL-ALITIARAMS  351 (863)
Q Consensus       295 ~v~-----------------l~~L~~~~a~~Lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~l~  351 (863)
                      ...                 +.+++.++..+++...+..  .....+   .+..+.+++.++   |.|- |+..+.....
T Consensus       178 ~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~  254 (387)
T 2v1u_A          178 GFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALDLLRVAGE  254 (387)
T ss_dssp             TTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            221                 7889999999999887532  111112   345677888887   9993 3333332221


Q ss_pred             -----C--CCChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhc-CCCCCCccchHHHHHHHH-
Q 038405          352 -----S--RRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCS-LFPEENNIRKDELIDLWI-  422 (863)
Q Consensus       352 -----~--~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~-~Fp~~~~i~~~~Li~~wi-  422 (863)
                           +  .-+.+.+..+++....             ..+.-++..|+.+ .+..+..++ ++.....+....+.+... 
T Consensus       255 ~a~~~~~~~i~~~~v~~a~~~~~~-------------~~~~~~~~~l~~~-~~~~l~a~~~~~~~~~~~~~~~~~~~~~~  320 (387)
T 2v1u_A          255 IAERRREERVRREHVYSARAEIER-------------DRVSEVVRTLPLH-AKLVLLSIMMLEDGGRPASTGEIYERYKE  320 (387)
T ss_dssp             HHHHTTCSCBCHHHHHHHHHHHHH-------------HHHHHHHHSSCHH-HHHHHHHHHHHSSSSCCEEHHHHHHHHHH
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHhh-------------chHHHHHHcCCHH-HHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence                 1  1355666666654321             2244456778875 565555444 343223455554433321 


Q ss_pred             ---hcCCCCCccchhHHhhhHHHHHHHHHHhcccccC
Q 038405          423 ---GEGFLSDFRSITTARNQGEYIIGSLKLACLLESG  456 (863)
Q Consensus       423 ---aeg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  456 (863)
                         ..| ...     ........+++.|...++++..
T Consensus       321 ~~~~~~-~~~-----~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          321 LTSTLG-LEH-----VTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHHHTT-CCC-----CCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHhcC-CCC-----CCHHHHHHHHHHHHhCCCeEEE
Confidence               122 111     1234566789999999999874

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.24  E-value=6.5e-12  Score=120.15  Aligned_cols=108  Identities=23%  Similarity=0.227  Sum_probs=94.4

Q ss_pred             CCCccEEEeeccccc--ccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccc-cchhhhcccCccE
Q 038405          520 CPHLQTLLVRFTVLE--IFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE-LPSEIMYLKNLKI  596 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~--~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~-lP~~i~~L~~L~~  596 (863)
                      .++|++|++++|.+.  .+|.. +..+++|++|++++| .+..+ ..++.+++|++|++++|.+.. +|..+.++++|++
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   99 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINV-GLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESS-CCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             cccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCC-CCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            688999999999988  78765 789999999999999 67777 678999999999999999998 7887888999999


Q ss_pred             EecCCCCCccccch-hhhcCCCCCceeeccCcchhh
Q 038405          597 LLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIE  631 (863)
Q Consensus       597 L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~  631 (863)
                      |++++|. +..+|. ..+..+++|++|++++|.+..
T Consensus       100 L~Ls~N~-l~~~~~~~~l~~l~~L~~L~l~~N~l~~  134 (168)
T 2ell_A          100 LNLSGNK-LKDISTLEPLKKLECLKSLDLFNCEVTN  134 (168)
T ss_dssp             EECBSSS-CCSSGGGGGGSSCSCCCEEECCSSGGGT
T ss_pred             EeccCCc-cCcchhHHHHhcCCCCCEEEeeCCcCcc
Confidence            9999997 677653 348999999999999987653

>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=99.20  E-value=7.6e-10  Score=121.61  Aligned_cols=279  Identities=15%  Similarity=0.072  Sum_probs=171.3

Q ss_pred             ccccchhhHHHHHHHhhcc----CCce--EEEEEcCCCChHHHHhhhhhhccccccCC-CCEEEEEEeCCCCCHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED----QSEQ--TIGLYGMGGVGKITLLKKPNNKFLDVNHC-FDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      +.++||+++++++.+++..    ....  .+.|+|++|+||||||+.+++..   ... -...+|+..+...+...+...
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHHH
Confidence            5799999999999998854    3334  89999999999999999999876   222 135678887888888899999


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEcccccc--cccccccccCCC-CC---CCeEEEEeecchhhh
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWER--LDLSKTGVSLSD-CQ---NGSKIVFTTRSEEVC  297 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~--~~~~~~~~~l~~-~~---~gs~iivTTr~~~v~  297 (863)
                      ++..++..... ...+..+....+.+.+.  +++.+||||+++..  ..+..+...+.. ..   .+..||+||+.....
T Consensus        94 l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           94 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            99988654311 12344555566666554  56889999999864  222333222211 11   467788888765321


Q ss_pred             -----------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHc---------CCChHHHHHHHHH-H
Q 038405          298 -----------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGEC---------KGLPLALITIARA-M  350 (863)
Q Consensus       298 -----------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c---------~glPLai~~~~~~-l  350 (863)
                                       +.+++.++..+++...+.... ....-..+..+.+++.+         +|.|-.+..+... .
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~  251 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSA  251 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHH
Confidence                             778999999999988764211 01112256788899999         7887544333222 2


Q ss_pred             h-----CC--CChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCC---CCCccchHHHHHH
Q 038405          351 S-----SR--RSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFP---EENNIRKDELIDL  420 (863)
Q Consensus       351 ~-----~~--~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp---~~~~i~~~~Li~~  420 (863)
                      .     +.  -+.+....+.....             ...+.-.+..|+.+ .+.++..++.+.   .+..+....+...
T Consensus       252 ~~a~~~~~~~i~~~~v~~~~~~~~-------------~~~~~~~l~~l~~~-~~~~L~~l~~~~~~~~~~~~~~~~i~~~  317 (389)
T 1fnn_A          252 YAAQQNGRKHIAPEDVRKSSKEVL-------------FGISEEVLIGLPLH-EKLFLLAIVRSLKISHTPYITFGDAEES  317 (389)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHS-------------CCCCHHHHHHSCHH-HHHHHHHHHHHHHHHCSSCEEHHHHHHH
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHHh-------------hhhHHHHHHcCCHH-HHHHHHHHHHHHhhccCCCccHHHHHHH
Confidence            1     11  12233333333221             11222334567775 677766666543   2224555555554


Q ss_pred             HHh----cCCCCCccchhHHhhhHHHHHHHHHHhcccccC
Q 038405          421 WIG----EGFLSDFRSITTARNQGEYIIGSLKLACLLESG  456 (863)
Q Consensus       421 wia----eg~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  456 (863)
                      +..    .|.. ..     .......++++|...+++...
T Consensus       318 ~~~~~~~~~~~-~~-----~~~~~~~~l~~L~~~gli~~~  351 (389)
T 1fnn_A          318 YKIVCEEYGER-PR-----VHSQLWSYLNDLREKGIVETR  351 (389)
T ss_dssp             HHHHHHHTTCC-CC-----CHHHHHHHHHHHHHTTSSEEE
T ss_pred             HHHHHHHcCCC-CC-----CHHHHHHHHHHHHhCCCeEEe
Confidence            432    1211 11     123456789999999999864

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.18  E-value=4.2e-11  Score=117.13  Aligned_cols=106  Identities=25%  Similarity=0.385  Sum_probs=93.6

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccch-hhhcccCccEEecCCC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPS-EIMYLKNLKILLLDGM  602 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~-~i~~L~~L~~L~l~~~  602 (863)
                      ++++++++.+..+|..+   .++|++|++++| .+..+|..+.++++|++|+|++|.|+.+|. .+.++++|++|++++|
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---PRDVTELYLDGN-QFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCCEEECCSS-CCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEcCCCCCCcCCCCC---CCCCCEEECCCC-cCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            67888999999999763   368999999999 888999999999999999999999999975 5999999999999999


Q ss_pred             CCccccchhhhcCCCCCceeeccCcchhhhcc
Q 038405          603 RHFHLIPARVFSSLLSLKVFSLFSTELIELHR  634 (863)
Q Consensus       603 ~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~  634 (863)
                      . +..+|...|.++++|++|++++|.+..+..
T Consensus        89 ~-l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~  119 (193)
T 2wfh_A           89 R-LRCIPPRTFDGLKSLRLLSLHGNDISVVPE  119 (193)
T ss_dssp             C-CCBCCTTTTTTCTTCCEEECCSSCCCBCCT
T ss_pred             c-cCEeCHHHhCCCCCCCEEECCCCCCCeeCh
Confidence            8 777877779999999999999988765543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.17  E-value=2.1e-11  Score=144.37  Aligned_cols=107  Identities=27%  Similarity=0.306  Sum_probs=74.2

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|++|+|++|.+..+|..++ .+++|++|+|++| .+..+|..|++|++|++|+|++|.|+.+|..+++|++|++|+|
T Consensus       223 l~~L~~L~Ls~n~l~~l~~~~~-~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L  300 (727)
T 4b8c_D          223 DQLWHALDLSNLQIFNISANIF-KYDFLTRLYLNGN-SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYF  300 (727)
T ss_dssp             CCCCCEEECTTSCCSCCCGGGG-GCCSCSCCBCTTS-CCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEEC
T ss_pred             CCCCcEEECCCCCCCCCChhhc-CCCCCCEEEeeCC-cCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEEC
Confidence            5667777777776666666643 6777777777777 5667777777777777777777777777777777777777777


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchh
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ++|. +..+|.. |++|++|++|++++|.+.
T Consensus       301 ~~N~-l~~lp~~-~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          301 FDNM-VTTLPWE-FGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             CSSC-CCCCCSS-TTSCTTCCCEECTTSCCC
T ss_pred             CCCC-CCccChh-hhcCCCccEEeCCCCccC
Confidence            7765 5566666 677777777777766553

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.17  E-value=1.4e-11  Score=115.25  Aligned_cols=109  Identities=22%  Similarity=0.273  Sum_probs=94.2

Q ss_pred             CCCccEEEeeccccc--ccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccc-cchhhhcccCccE
Q 038405          520 CPHLQTLLVRFTVLE--IFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEE-LPSEIMYLKNLKI  596 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~--~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~-lP~~i~~L~~L~~  596 (863)
                      .++|+.|++++|.+.  .+|. .+..+++|++|++++| .+..+ ..++++++|++|++++|.+.. +|..++.+++|++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n-~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~   92 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEG-LTDEFEELEFLSTINV-GLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTH   92 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCS-CCTTCTTCCEEECTTS-CCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCE
T ss_pred             CccCeEEEccCCcCChhHHHH-HHhhcCCCcEEECcCC-CCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCE
Confidence            578999999999888  7776 4789999999999999 77777 678999999999999999998 8888888999999


Q ss_pred             EecCCCCCccccch-hhhcCCCCCceeeccCcchhhh
Q 038405          597 LLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       597 L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      |++++|. +..+|. ..++.+++|++|++++|.+...
T Consensus        93 L~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N~l~~~  128 (149)
T 2je0_A           93 LNLSGNK-IKDLSTIEPLKKLENLKSLDLFNCEVTNL  128 (149)
T ss_dssp             EECTTSC-CCSHHHHGGGGGCTTCCEEECTTCGGGGS
T ss_pred             EECCCCc-CCChHHHHHHhhCCCCCEEeCcCCcccch
Confidence            9999998 666541 3389999999999999876543

>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=99.16  E-value=1.6e-10  Score=126.87  Aligned_cols=281  Identities=11%  Similarity=0.092  Sum_probs=165.7

Q ss_pred             ccccchhhHHHHHHHhhc----cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIE----DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      +.++||+++++++.+++.    ....+.+.|+|++|+||||||+.+++........-...+|+......+...+...++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            679999999999999986    3456789999999999999999999876211110235678887766677788888888


Q ss_pred             HcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEccccccc------ccccccccCCC-CCCCeEEEEeecchhhh--
Q 038405          229 KLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERL------DLSKTGVSLSD-CQNGSKIVFTTRSEEVC--  297 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~~~~~l~~-~~~gs~iivTTr~~~v~--  297 (863)
                      .++..... ...+..+....+.+.+.  +++.+||||+++...      .+..+...+.. ...+..+|+||+.....  
T Consensus       100 ~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A          100 SLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence            77654211 12234455566666664  458999999997632      12222111111 23456678888765321  


Q ss_pred             ---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcC---CChHHHH-HHHHHHh-----C-
Q 038405          298 ---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECK---GLPLALI-TIARAMS-----S-  352 (863)
Q Consensus       298 ---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---glPLai~-~~~~~l~-----~-  352 (863)
                                     +.+++.++..+++...+.... ....-..+..+.+++.++   |.|..+. .+.....     + 
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~  257 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKD  257 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCC
Confidence                           788999999999988653111 011222567777888887   9987443 3332221     1 


Q ss_pred             -CCChhhHHHHHHHHhcCCCccCCCCccccchhhcccCCCChhhHhHHhhhhcCCCC-C-CccchHHHHHHH--Hh--cC
Q 038405          353 -RRSPREWQYVIDELQRNPSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYCSLFPE-E-NNIRKDELIDLW--IG--EG  425 (863)
Q Consensus       353 -~~~~~~w~~~~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~~~Fp~-~-~~i~~~~Li~~w--ia--eg  425 (863)
                       .-+.+.++.+++...             ...+.-++..+|.+ .+..+..++...+ + ..+....+.+..  ++  .|
T Consensus       258 ~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~~-~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g  323 (386)
T 2qby_A          258 TKVKEEYVYMAKEEIE-------------RDRVRDIILTLPFH-SKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG  323 (386)
T ss_dssp             SSCCHHHHHHHHHHHH-------------HHHHHHHHHTSCHH-HHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT
T ss_pred             CccCHHHHHHHHHHHh-------------hchHHHHHHcCCHH-HHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC
Confidence             124455555554332             12344456677774 6666555552211 1 223333332221  11  12


Q ss_pred             CCCCccchhHHhhhHHHHHHHHHHhccccc
Q 038405          426 FLSDFRSITTARNQGEYIIGSLKLACLLES  455 (863)
Q Consensus       426 ~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~  455 (863)
                       +...     .......+++.|...++++.
T Consensus       324 -~~~~-----~~~~~~~~l~~L~~~gli~~  347 (386)
T 2qby_A          324 -VEAV-----TQRRVSDIINELDMVGILTA  347 (386)
T ss_dssp             -CCCC-----CHHHHHHHHHHHHHHTSEEE
T ss_pred             -CCCC-----CHHHHHHHHHHHHhCCCEEE
Confidence             1110     12345667899999999975

>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=99.16  E-value=2.2e-10  Score=116.96  Aligned_cols=187  Identities=13%  Similarity=0.138  Sum_probs=112.6

Q ss_pred             ccccchhhHHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..++||+..++.+..++.... .+.+.|+|++|+||||+|+.+++... ....+..      ........ ...+.....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~-~~~~~~~------~~~~~~~~-~~~~~~~~~   94 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITA------TPCGVCDN-CREIEQGRF   94 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH-CTTCSCS------SCCSCSHH-HHHHHTTCC
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCCC------CCCcccHH-HHHHhccCC
Confidence            568999999999999997643 35889999999999999999988762 1111100      00000000 011111100


Q ss_pred             CCcccc--cccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh-----
Q 038405          232 ISDYIW--NMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       232 ~~~~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~-----  297 (863)
                      ......  ...........+.+.+     .+++.+||+||++..  ..+..+...+.....+..+|+||+.....     
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~  174 (250)
T 1njg_A           95 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  174 (250)
T ss_dssp             SSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             cceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHH
Confidence            000000  0001111122222222     346899999999763  33444444444445678899988765422     


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHH
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM  350 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  350 (863)
                             +.+++.++..+++...+......   -..+..+.|++.|+|.|..+..+...+
T Consensus       175 ~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          175 SRCLQFHLKALDVEQIRHQLEHILNEEHIA---HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHTTCC---BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhhhccCCCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                   88899999999998876432211   125678899999999999888766544

>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=99.15  E-value=4.8e-11  Score=116.74  Aligned_cols=106  Identities=20%  Similarity=0.258  Sum_probs=91.6

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh--hhcccccceeeccCCCcccc-chhhhcccCccEEecC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE--MGALINLRCLNLSNTSIEEL-PSEIMYLKNLKILLLD  600 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~--i~~L~~L~~L~L~~~~i~~l-P~~i~~L~~L~~L~l~  600 (863)
                      ++++++++.+..+|..+.   .+|++|++++| .+..+|..  ++.+++|++|+|++|.|+.+ |..+.++++|++|+++
T Consensus        11 ~~l~~s~~~l~~ip~~~~---~~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP---LHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC---TTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCcCcCccCCC---CCCCEEECCCC-cCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            789999999999998643   38999999999 78888764  89999999999999999988 6779999999999999


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhcc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHR  634 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~  634 (863)
                      +|. +..++...+.++++|++|++++|.+....+
T Consensus        87 ~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  119 (192)
T 1w8a_A           87 ENK-IKEISNKMFLGLHQLKTLNLYDNQISCVMP  119 (192)
T ss_dssp             SCC-CCEECSSSSTTCTTCCEEECCSSCCCEECT
T ss_pred             CCc-CCccCHHHhcCCCCCCEEECCCCcCCeeCH
Confidence            998 677776668999999999999987765443

>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=99.13  E-value=3.5e-11  Score=115.94  Aligned_cols=108  Identities=18%  Similarity=0.239  Sum_probs=92.7

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhh-hcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI-MYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i-~~L~~L~~L~  598 (863)
                      +++|+.|++++|.+..++. +....++|++|++++| .+..+ ..++.+++|++|++++|.|..+|..+ +.+++|++|+
T Consensus        18 ~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N-~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~   94 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDN-EIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   94 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSS-CCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             cCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCC-CCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEE
Confidence            7899999999999988864 3333449999999999 77777 56899999999999999999999775 8999999999


Q ss_pred             cCCCCCccccch-hhhcCCCCCceeeccCcchhh
Q 038405          599 LDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIE  631 (863)
Q Consensus       599 l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~  631 (863)
                      +++|. +..+|. ..+..+++|++|++++|.+..
T Consensus        95 L~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~i~~  127 (176)
T 1a9n_A           95 LTNNS-LVELGDLDPLASLKSLTYLCILRNPVTN  127 (176)
T ss_dssp             CCSCC-CCCGGGGGGGGGCTTCCEEECCSSGGGG
T ss_pred             CCCCc-CCcchhhHhhhcCCCCCEEEecCCCCCC
Confidence            99998 677776 238899999999999987653

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.12  E-value=1.9e-10  Score=123.06  Aligned_cols=215  Identities=13%  Similarity=0.062  Sum_probs=117.9

Q ss_pred             ccccceeeccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch----hhhccCCCCcccc
Q 038405          568 LINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL----IELHRMPPNQTTI  642 (863)
Q Consensus       568 L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~----~~~~~~~~~~~~~  642 (863)
                      +.+|+.|+|.+ .++.++.. |.+|++|+.|++.+|. +..++..+|..+.++..+....+..    ..+....+..+. 
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~-i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~-  176 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKT-APNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGE-  176 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSS-CCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESC-
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCC-ccccchhhhcCCCceEEecCcchhhhhcccccccccccccc-
Confidence            77777777777 67777654 6677777777777765 5566666676666666665543211    000000000000 


Q ss_pred             chhhhhhcccceeeEEeecCchhhhhhh-ccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCC
Q 038405          643 LDELECLGNQIYEISITLGSASALFKIN-FSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFN  719 (863)
Q Consensus       643 l~~L~~l~n~L~~l~~~~~~~~~l~~l~-~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~  719 (863)
                               .++ ..+.+.....+.... ...-...++..+.+.++-......  ...+++|++|++++|.++.++..  
T Consensus       177 ---------~L~-~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~--  244 (329)
T 3sb4_A          177 ---------PLE-TTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDF--  244 (329)
T ss_dssp             ---------CCE-EEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTT--
T ss_pred             ---------ccc-eeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHh--
Confidence                     111 011112222222111 111123456666665543222111  22478888888888888877654  


Q ss_pred             CCCCCCCCCEEEEecCCCCCCC--cccccCCCcc-eEeeccCcchhhhhcccCCccccccCccCcccceecccccccccc
Q 038405          720 GWTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQ-FLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKR  796 (863)
Q Consensus       720 ~~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~-~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~  796 (863)
                      .+..+++|+.|+|.++  ++.+  ..+..+++|+ .|.+.+  .++.|..        ..+.++++|+.+.+.+ .+++.
T Consensus       245 aF~~~~~L~~l~l~~n--i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~--------~aF~~c~~L~~l~l~~-n~i~~  311 (329)
T 3sb4_A          245 TFAQKKYLLKIKLPHN--LKTIGQRVFSNCGRLAGTLELPA--SVTAIEF--------GAFMGCDNLRYVLATG-DKITT  311 (329)
T ss_dssp             TTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEEECT--TCCEECT--------TTTTTCTTEEEEEECS-SCCCE
T ss_pred             hhhCCCCCCEEECCcc--cceehHHHhhCChhccEEEEEcc--cceEEch--------hhhhCCccCCEEEeCC-CccCc
Confidence            5677888888888876  4444  3477888888 888876  3444432        3556778888888754 35666


Q ss_pred             cccC-ccCCCCccEE
Q 038405          797 ICHG-TMPFPSLQNV  810 (863)
Q Consensus       797 l~~~-~~~~~~L~~L  810 (863)
                      +... ...+++|+.+
T Consensus       312 I~~~aF~~~~~L~~l  326 (329)
T 3sb4_A          312 LGDELFGNGVPSKLI  326 (329)
T ss_dssp             ECTTTTCTTCCCCEE
T ss_pred             cchhhhcCCcchhhh
Confidence            6542 2233444444

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.10  E-value=1.6e-10  Score=110.78  Aligned_cols=100  Identities=24%  Similarity=0.327  Sum_probs=55.8

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccccchh-hhcccCccEEecCC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDG  601 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~  601 (863)
                      +.++++++.+..+|..+   .++|++|+|++| .+..+ |..++++++|++|+|++|.|+.+|.. +.++++|++|++++
T Consensus        15 ~~l~~~~n~l~~iP~~~---~~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGI---PTDKQRLWLNNN-QITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SEEECCSSCCSSCCSCC---CTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             cEEEeCCCCCCccCCCc---CCCCcEEEeCCC-CccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            44555555555555432   255566666666 44444 44555666666666666666666554 35566666666666


Q ss_pred             CCCccccchhhhcCCCCCceeeccCcc
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      |. +..+|.+.+.++++|++|++.+|.
T Consensus        91 N~-l~~l~~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           91 NH-LKSIPRGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             SC-CCCCCTTTTTTCTTCSEEECCSSC
T ss_pred             Cc-cceeCHHHhccccCCCEEEeCCCC
Confidence            55 445555445566666666666554

>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=99.09  E-value=6.9e-10  Score=111.41  Aligned_cols=174  Identities=12%  Similarity=0.093  Sum_probs=112.1

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..++|+++.++++.+++.....+.+.|+|.+|+|||++|+.+++... . ..+ ...+.+..+.......+...+.....
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF-G-ENWRDNFIEMNASDERGIDVVRHKIKEFAR   94 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHH-G-GGGGGGEEEEETTCTTCHHHHHHHHHHHHT
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHh-c-cccccceEEeccccccChHHHHHHHHHHhc
Confidence            56899999999999999876665699999999999999999988651 1 111 12334444443333333222221111


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------  297 (863)
                      ...                 .-.+++.+||+||++...  ....+...+.....+.++|+||+.....            
T Consensus        95 ~~~-----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~  157 (226)
T 2chg_A           95 TAP-----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFR  157 (226)
T ss_dssp             SCC-----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             ccC-----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceee
Confidence            000                 012578899999998642  2333433333345678899988865422            


Q ss_pred             cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHH
Q 038405          298 VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIAR  348 (863)
Q Consensus       298 l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  348 (863)
                      +.+++.++..+++...+......   -..+..+.+++.++|.|..+..+..
T Consensus       158 ~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          158 FKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            78899999999998876432211   1256778899999999986554443

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.09  E-value=1e-10  Score=125.23  Aligned_cols=285  Identities=15%  Similarity=0.092  Sum_probs=171.1

Q ss_pred             CCCccEEEeecccccccchhhhhc-CCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchh-hhc-------
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFES-MGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSE-IMY-------  590 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~-l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~-i~~-------  590 (863)
                      .++++.|.+.++ +....-..+.. +++|++|||++| .+......-+.++.++++.+..+   .+|.. +.+       
T Consensus        24 ~~~l~~L~l~g~-i~~~~~~~l~~~l~~L~~LdLs~n-~i~~~~~~~~~~~~~~~~~~~~~---~I~~~aF~~~~~~~~~   98 (329)
T 3sb4_A           24 ANSITHLTLTGK-LNAEDFRHLRDEFPSLKVLDISNA-EIKMYSGKAGTYPNGKFYIYMAN---FVPAYAFSNVVNGVTK   98 (329)
T ss_dssp             HHHCSEEEEEEE-ECHHHHHHHHHSCTTCCEEEEEEE-EECCEEESSSSSGGGCCEEECTT---EECTTTTEEEETTEEE
T ss_pred             hCceeEEEEecc-ccHHHHHHHHHhhccCeEEecCcc-eeEEecCcccccccccccccccc---ccCHHHhccccccccc
Confidence            567889999876 11111122444 788999999999 56522111223333555555555   44443 566       


Q ss_pred             -ccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCc-hhhhh
Q 038405          591 -LKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSA-SALFK  668 (863)
Q Consensus       591 -L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~-~~l~~  668 (863)
                       +++|+.|++.+ . +..++.++|.++++|+.|++..|.+..+....+.....          +..++...... .....
T Consensus        99 g~~~L~~l~L~~-~-i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~----------l~~l~~~~~~~~~~~~~  166 (329)
T 3sb4_A           99 GKQTLEKVILSE-K-IKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVT----------AIFIPLGSSDAYRFKNR  166 (329)
T ss_dssp             ECTTCCC-CBCT-T-CCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTC----------EEEECTTCTHHHHTSTT
T ss_pred             ccCCCcEEECCc-c-ccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCc----------eEEecCcchhhhhcccc
Confidence             99999999998 3 88899999999999999999988766555444433221          22222111000 00000


Q ss_pred             h-hcccccccccc-EEEecccCCccccc---ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC--
Q 038405          669 I-NFSWKLCSCIK-RLTIMHNLDSHSID---LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL--  741 (863)
Q Consensus       669 l-~~~~~~~~~L~-~L~l~~~~~~~~~~---l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--  741 (863)
                      + ......+..|+ .+.+.........-   -..+.++..+.+.+.- ....... ....+++|+.|+|.+|. ++.+  
T Consensus       167 i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l-~~~~~~~-l~~~~~~L~~l~L~~n~-i~~I~~  243 (329)
T 3sb4_A          167 WEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKL-DNADFKL-IRDYMPNLVSLDISKTN-ATTIPD  243 (329)
T ss_dssp             TTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECC-CHHHHHH-HHHHCTTCCEEECTTBC-CCEECT
T ss_pred             ccccccccccccceeEEecCCCcHHHHHhhcccCccccceEEEeeee-cHHHHHH-HHHhcCCCeEEECCCCC-cceecH
Confidence            0 01112233444 34443322211110   1234677777777652 1111100 00137899999999885 4444  


Q ss_pred             cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccc-eeccccccccccccc-CccCCCCccEEeeccCCCCC
Q 038405          742 TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLM-VIDLDSLPSLKRICH-GTMPFPSLQNVSVTNCPNLR  819 (863)
Q Consensus       742 ~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~-~L~L~~~~~L~~l~~-~~~~~~~L~~L~i~~C~~L~  819 (863)
                      ..+..+++|+.|.|.++  ++.|+.        ..+.++++|+ .+.+.+  +++.+.. ....+++|+.+.+.+ .+++
T Consensus       244 ~aF~~~~~L~~l~l~~n--i~~I~~--------~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~-n~i~  310 (329)
T 3sb4_A          244 FTFAQKKYLLKIKLPHN--LKTIGQ--------RVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATG-DKIT  310 (329)
T ss_dssp             TTTTTCTTCCEEECCTT--CCEECT--------TTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECS-SCCC
T ss_pred             hhhhCCCCCCEEECCcc--cceehH--------HHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCC-CccC
Confidence            34889999999999886  565543        3566788898 998876  7777753 445678899988865 4788


Q ss_pred             CCCCCCCCCCCcceEEEc
Q 038405          820 ELPFNFDSAKNSLVSIRG  837 (863)
Q Consensus       820 ~lp~~~~~~~~~l~~i~~  837 (863)
                      .++......+.+|+.++.
T Consensus       311 ~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          311 TLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             EECTTTTCTTCCCCEEEC
T ss_pred             ccchhhhcCCcchhhhcc
Confidence            888766666778887753

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.06  E-value=2.8e-10  Score=109.13  Aligned_cols=106  Identities=18%  Similarity=0.228  Sum_probs=95.4

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~i  581 (863)
                      +.+.+.++.+..+|....++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. +.++++|++|+|++|.|
T Consensus        15 ~~l~~~~n~l~~iP~~~~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L~~N~l   93 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIPTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNHL   93 (174)
T ss_dssp             SEEECCSSCCSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             cEEEeCCCCCCccCCCcCCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC-CCCccChhHhCCcchhhEEECCCCcc
Confidence            56888899999999877899999999999999998888999999999999999 88888876 58999999999999999


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccch
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPA  610 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~  610 (863)
                      +.+|.. +..+++|++|++++|. +...+.
T Consensus        94 ~~l~~~~~~~l~~L~~L~L~~N~-~~c~~~  122 (174)
T 2r9u_A           94 KSIPRGAFDNLKSLTHIYLYNNP-WDCECR  122 (174)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSSC-BCTTBG
T ss_pred             ceeCHHHhccccCCCEEEeCCCC-cccccc
Confidence            999986 8999999999999997 555554

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.05  E-value=3e-10  Score=108.50  Aligned_cols=100  Identities=28%  Similarity=0.339  Sum_probs=58.6

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCccccchh-hhcccCccEEecCC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDG  601 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~  601 (863)
                      ++++++++.+..+|..+   .++|++|+|++| .+..+ |..++++++|++|+|++|.|+.+|.. +..+++|++|++++
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~~   87 (170)
T 3g39_A           12 TTVDCSGKSLASVPTGI---PTTTQVLYLYDN-QITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCccCccC---CCCCcEEEcCCC-cCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            45555555555555442   255666666666 44444 44456666666666666666666554 35666666666666


Q ss_pred             CCCccccchhhhcCCCCCceeeccCcc
Q 038405          602 MRHFHLIPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       602 ~~~l~~lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      |. +..+|.+.+.++++|++|++++|.
T Consensus        88 N~-l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           88 NQ-LKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             SC-CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             Cc-cCEeCHHHhcCCCCCCEEEeCCCC
Confidence            65 555555546666666666666654

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.04  E-value=4.5e-10  Score=107.29  Aligned_cols=101  Identities=25%  Similarity=0.312  Sum_probs=92.3

Q ss_pred             ceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeeccCCC
Q 038405          502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSNTS  580 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~~~~  580 (863)
                      .+.+.+.++.+..+|....++|++|++++|.+..+++..|..+++|++|+|++| .+..+|.. +.++++|++|+|++|.
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~~N~   89 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             TTEEECTTSCCSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEeCCCCcCccCccCCCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCC-CcCccChhhccCCCCCCEEECCCCc
Confidence            357888999999999877899999999999999998888999999999999999 78888765 5899999999999999


Q ss_pred             ccccchh-hhcccCccEEecCCCC
Q 038405          581 IEELPSE-IMYLKNLKILLLDGMR  603 (863)
Q Consensus       581 i~~lP~~-i~~L~~L~~L~l~~~~  603 (863)
                      |+.+|.. +.++++|++|++++|.
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           90 LKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCEeCHHHhcCCCCCCEEEeCCCC
Confidence            9999875 8999999999999997

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.02  E-value=3.1e-11  Score=118.88  Aligned_cols=117  Identities=21%  Similarity=0.192  Sum_probs=97.6

Q ss_pred             CccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhh
Q 038405          511 SIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI  588 (863)
Q Consensus       511 ~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i  588 (863)
                      .++.+|...  +++|++|++++|.+..+|  .+..+++|++|++++| .+..+|..++.+++|++|++++|.+..+| .+
T Consensus        36 ~l~~l~~~~~~l~~L~~L~ls~n~l~~l~--~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~  111 (198)
T 1ds9_A           36 PIEKMDATLSTLKACKHLALSTNNIEKIS--SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GI  111 (198)
T ss_dssp             TCCCCHHHHHHTTTCSEEECSEEEESCCC--CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEEEEECCCHH-HH
T ss_pred             cHhhhhHHHhcCCCCCEEECCCCCCcccc--ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEECcCCcCCcCC-cc
Confidence            445555443  889999999999888888  4889999999999999 78889988888899999999999999988 68


Q ss_pred             hcccCccEEecCCCCCccccch-hhhcCCCCCceeeccCcchhhh
Q 038405          589 MYLKNLKILLLDGMRHFHLIPA-RVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       589 ~~L~~L~~L~l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                      ..+++|++|++++|. +..+|. ..+..+++|++|++.+|.+...
T Consensus       112 ~~l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~l~~~  155 (198)
T 1ds9_A          112 EKLVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLYND  155 (198)
T ss_dssp             HHHHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSCHHHHH
T ss_pred             ccCCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCCccccc
Confidence            899999999999987 666554 3488999999999998876543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.01  E-value=1.5e-11  Score=121.06  Aligned_cols=102  Identities=18%  Similarity=0.259  Sum_probs=77.4

Q ss_pred             CccEEEeecc--cccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          522 HLQTLLVRFT--VLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       522 ~Lr~L~l~~~--~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      .++...+.++  .++.+|. .+..+++|++|++++| .+..+| .++++++|++|++++|.+..+|..+..+++|++|++
T Consensus        24 ~l~~~~l~~~~~~l~~l~~-~~~~l~~L~~L~ls~n-~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L  100 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDA-TLSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWI  100 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHH-HHHHTTTCSEEECSEE-EESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEE
T ss_pred             chheeEeccccCcHhhhhH-HHhcCCCCCEEECCCC-CCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEEC
Confidence            3445555544  4556665 3778888888888888 677787 788888888888888888888888888888888888


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      ++|. +..+| . ++++++|++|++++|.+
T Consensus       101 ~~N~-l~~l~-~-~~~l~~L~~L~l~~N~i  127 (198)
T 1ds9_A          101 SYNQ-IASLS-G-IEKLVNLRVLYMSNNKI  127 (198)
T ss_dssp             EEEE-CCCHH-H-HHHHHHSSEEEESEEEC
T ss_pred             cCCc-CCcCC-c-cccCCCCCEEECCCCcC
Confidence            8886 66666 3 77888888888877653

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.99  E-value=8.3e-10  Score=106.35  Aligned_cols=106  Identities=27%  Similarity=0.359  Sum_probs=90.5

Q ss_pred             ccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEEecC
Q 038405          523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLD  600 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~  600 (863)
                      .+.+.++++.+..+|...   .++|++|++++| .+..+|. .++++++|++|++++|.++.+|.. +..+++|++|+++
T Consensus         9 ~~~l~~~~~~l~~~p~~~---~~~l~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~   84 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGI---PSSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLH   84 (177)
T ss_dssp             TTEEECCSSCCSSCCTTC---CTTCSEEECCSS-CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEecCCCCccCCCCC---CCCCcEEEeCCC-cccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECC
Confidence            577888889999998653   478999999999 6777765 468999999999999999999876 6899999999999


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELH  633 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~  633 (863)
                      +|. +..+|...+.++++|++|++++|.+..+.
T Consensus        85 ~N~-l~~~~~~~~~~l~~L~~L~l~~N~l~~~~  116 (177)
T 2o6r_A           85 ENK-LQSLPNGVFDKLTQLKELALDTNQLKSVP  116 (177)
T ss_dssp             SSC-CCCCCTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CCC-ccccCHHHhhCCcccCEEECcCCcceEeC
Confidence            997 77788776899999999999998765443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.92  E-value=1.9e-08  Score=109.90  Aligned_cols=110  Identities=19%  Similarity=0.249  Sum_probs=81.8

Q ss_pred             CccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccccchh
Q 038405          511 SIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEELPSE  587 (863)
Q Consensus       511 ~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP~~  587 (863)
                      .++.++...  -.+|+.+.+..+ ++.++...|.++ +|+.+.+..+  +..++ ..|.++.+|+.+++++|++..+|..
T Consensus       123 ~i~~I~~~aF~~~~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~~--l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~  198 (401)
T 4fdw_A          123 SVKSIPKDAFRNSQIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPST--LEQLKEDIFYYCYNLKKADLSKTKITKLPAS  198 (401)
T ss_dssp             TCCEECTTTTTTCCCSEEECCTT-CCEECTTTTTTC-CCCEEECCTT--CCEECSSTTTTCTTCCEEECTTSCCSEECTT
T ss_pred             ccCEehHhhcccCCccEEEeCCC-ccEECHHhcCCC-CceEEEeCCC--ccEehHHHhhCcccCCeeecCCCcceEechh
Confidence            445555443  236888887665 777777777774 6888888764  55554 4678888899999988888888877


Q ss_pred             hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccC
Q 038405          588 IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       588 i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~  626 (863)
                      .-...+|+.+.+..+  +..++..+|.++++|+.+.+..
T Consensus       199 aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          199 TFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             TTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCT
T ss_pred             hEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCC
Confidence            555788888888754  7778888888888888888864

>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=98.92  E-value=3.2e-09  Score=113.29  Aligned_cols=175  Identities=15%  Similarity=0.187  Sum_probs=110.3

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|++..++.+.+++..+..+.+.|+|++|+||||+|+.+++...  ...+ ...+++..++......+. ++++.+.
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~i~-~~~~~~~   97 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL--GRSYADGVLELNASDDRGIDVVR-NQIKHFA   97 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH--GGGHHHHEEEECTTSCCSHHHHH-THHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCCEEEecCccccChHHHH-HHHHHHH
Confidence            56899999999999999876665699999999999999999998751  1111 123344333322222221 1111110


Q ss_pred             CCcccccccChhhHHHHHHHHh-ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh-----------
Q 038405          232 ISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~-----------  297 (863)
                      ...                ..+ .+++.++|+||++..  ..+..+...+.....++++|+||+...-.           
T Consensus        98 ~~~----------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i  161 (323)
T 1sxj_B           98 QKK----------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAIL  161 (323)
T ss_dssp             HBC----------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             hcc----------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEE
Confidence            000                011 346899999999863  23334433333344678888888764322           


Q ss_pred             -cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHH-HHHHHHH
Q 038405          298 -VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLA-LITIARA  349 (863)
Q Consensus       298 -l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa-i~~~~~~  349 (863)
                       +.+++.++..+++...+.......   ..+....|++.++|.|.. +..+...
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          162 RYSKLSDEDVLKRLLQIIKLEDVKY---TNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             eecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence             788999999999988764322111   256778999999999954 4444433

>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=98.82  E-value=7.4e-09  Score=110.50  Aligned_cols=165  Identities=12%  Similarity=0.110  Sum_probs=99.8

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      +.++|++..++++..++..     .....+.|+|++|+|||++|+.+++..   ...   ..++..+.......+...+.
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAAILA   85 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHHHHHT
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHHHHHH
Confidence            5689999999998888742     344678899999999999999999876   222   23444333222222221111


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCC--------C----------CCCCeEE
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLS--------D----------CQNGSKI  287 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~--------~----------~~~gs~i  287 (863)
                      .                       .+ .+..+|+||+++...  ....+...+.        .          ...+.++
T Consensus        86 ~-----------------------~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           86 N-----------------------SL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             T-----------------------TC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             H-----------------------hc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence            0                       01 245577778876532  1111110000        0          0123466


Q ss_pred             EEeecchhh-------------hcccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHH
Q 038405          288 VFTTRSEEV-------------CVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAM  350 (863)
Q Consensus       288 ivTTr~~~v-------------~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  350 (863)
                      |.||.....             .+.+++.+|..+++...+......   -..+..+.+++.++|.|-.+..+...+
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR---ITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            666653321             178889999999988776432211   225678899999999998877666554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.80  E-value=8.4e-08  Score=104.83  Aligned_cols=209  Identities=14%  Similarity=0.166  Sum_probs=136.9

Q ss_pred             cceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          501 EDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      .++.+.+..+ ++.++...  -.+|+.+.+.. .+..++...|..+++|+.++++++ .+..+|...-...+|+.+.+..
T Consensus       136 ~L~~i~l~~~-i~~I~~~aF~~~~L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n-~l~~I~~~aF~~~~L~~l~lp~  212 (401)
T 4fdw_A          136 QIAKVVLNEG-LKSIGDMAFFNSTVQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKT-KITKLPASTFVYAGIEEVLLPV  212 (401)
T ss_dssp             CCSEEECCTT-CCEECTTTTTTCCCCEEECCT-TCCEECSSTTTTCTTCCEEECTTS-CCSEECTTTTTTCCCSEEECCT
T ss_pred             CccEEEeCCC-ccEECHHhcCCCCceEEEeCC-CccEehHHHhhCcccCCeeecCCC-cceEechhhEeecccCEEEeCC
Confidence            5667776544 66666654  34689998876 688888888999999999999988 7888887655578999999985


Q ss_pred             CCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeE
Q 038405          579 TSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEIS  657 (863)
Q Consensus       579 ~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~  657 (863)
                       .++.++.. +.++++|+.+++..+  +..++..+|.+ .+|+.+.+.. .+..+....+                    
T Consensus       213 -~l~~I~~~aF~~~~~L~~l~l~~~--l~~I~~~aF~~-~~L~~i~lp~-~i~~I~~~aF--------------------  267 (401)
T 4fdw_A          213 -TLKEIGSQAFLKTSQLKTIEIPEN--VSTIGQEAFRE-SGITTVKLPN-GVTNIASRAF--------------------  267 (401)
T ss_dssp             -TCCEECTTTTTTCTTCCCEECCTT--CCEECTTTTTT-CCCSEEEEET-TCCEECTTTT--------------------
T ss_pred             -chheehhhHhhCCCCCCEEecCCC--ccCcccccccc-CCccEEEeCC-CccEEChhHh--------------------
Confidence             48888654 888999999999875  67888887877 7888888853 2222222222                    


Q ss_pred             EeecCchhhhhhhccccccccccEEEecccCCc-----cc--ccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEE
Q 038405          658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDS-----HS--IDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHL  730 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~-----~~--~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L  730 (863)
                                      ..|++|+.+.+.++...     ..  ..|.++++|+.+.+.++ ++.++..  .+..+.+|+.|
T Consensus       268 ----------------~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~-i~~I~~~--aF~~c~~L~~l  328 (401)
T 4fdw_A          268 ----------------YYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPES-IRILGQG--LLGGNRKVTQL  328 (401)
T ss_dssp             ----------------TTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTT-CCEECTT--TTTTCCSCCEE
T ss_pred             ----------------hCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCc-eEEEhhh--hhcCCCCccEE
Confidence                            22344555555443322     11  12666666666666632 5555333  44556666666


Q ss_pred             EEecCCCCCCC--cccccCCCcceEeeccCc
Q 038405          731 SIRVCPVIRDL--TWIREAPNLQFLSLVNCQ  759 (863)
Q Consensus       731 ~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~  759 (863)
                      .|..+  ++.+  ..+..+ +|+.|.+.++.
T Consensus       329 ~lp~~--l~~I~~~aF~~~-~L~~l~l~~n~  356 (401)
T 4fdw_A          329 TIPAN--VTQINFSAFNNT-GIKEVKVEGTT  356 (401)
T ss_dssp             EECTT--CCEECTTSSSSS-CCCEEEECCSS
T ss_pred             EECcc--ccEEcHHhCCCC-CCCEEEEcCCC
Confidence            66443  2322  235556 66666666653

>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=98.74  E-value=2.8e-08  Score=106.17  Aligned_cols=174  Identities=14%  Similarity=0.144  Sum_probs=109.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|++..++.+.+++..+..+.+.|+|++|+||||+|+.+++... . ..+ ...+.+..+.......+.        
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~-~-~~~~~~~~~~~~~~~~~~~~~~--------   94 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF-G-ENWRHNFLELNASDERGINVIR--------   94 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH-G-GGHHHHEEEEETTCHHHHHTTH--------
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc-C-CcccCceEEeeccccCchHHHH--------
Confidence            46899999999999999887766799999999999999999998751 1 111 112233322110000000        


Q ss_pred             CCcccccccChhhHHHHHHHH--h-ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh---------
Q 038405          232 ISDYIWNMKGEYDRAVEILIS--L-RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC---------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~---------  297 (863)
                                  +........  + .+++.++|+||++..  ..+..+...+.....++++|+||+...-.         
T Consensus        95 ------------~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  162 (327)
T 1iqp_A           95 ------------EKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  162 (327)
T ss_dssp             ------------HHHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             ------------HHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCc
Confidence                        011111110  1 257889999999864  23334433333345578888888765321         


Q ss_pred             ---cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHh
Q 038405          298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMS  351 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~  351 (863)
                         +.+++.++..+++...+.......   ..+..+.|++.++|.|..+..+...+.
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          163 IFRFRPLRDEDIAKRLRYIAENEGLEL---TEEGLQAILYIAEGDMRRAINILQAAA  216 (327)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCEE---CHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence               788999999999887764322111   156778899999999986665544443

>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=98.69  E-value=2.3e-08  Score=107.76  Aligned_cols=97  Identities=16%  Similarity=0.199  Sum_probs=46.8

Q ss_pred             Eeecc-cccccchhhhhcCCCccEEeccC-CcCccccc-hhhhcccccceeeccCCCccccch-hhhcccCccEEecCCC
Q 038405          527 LVRFT-VLEIFPHRFFESMGALKVLDLSY-NLDLTQLP-AEMGALINLRCLNLSNTSIEELPS-EIMYLKNLKILLLDGM  602 (863)
Q Consensus       527 ~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~-~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP~-~i~~L~~L~~L~l~~~  602 (863)
                      +++++ .+..+|.  +..+++|++|+|++ | .+..+| ..|++|.+|++|+|++|.|+.+|+ .|.+|++|++|+|++|
T Consensus        14 ~~~~~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           14 RCTRDGALDSLHH--LPGAENLTELYIENQQ-HLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             ECCSSCCCTTTTT--SCSCSCCSEEECCSCS-SCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EcCCCCCCCccCC--CCCCCCeeEEEccCCC-CCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCC
Confidence            33443 4444444  44455555555553 4 444443 334555555555555555554433 2455555555555555


Q ss_pred             CCccccchhhhcCCCCCceeeccCcc
Q 038405          603 RHFHLIPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       603 ~~l~~lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      . +..+|...+..++ |++|++.+|.
T Consensus        91 ~-l~~~~~~~~~~~~-L~~l~l~~N~  114 (347)
T 2ifg_A           91 A-LESLSWKTVQGLS-LQELVLSGNP  114 (347)
T ss_dssp             C-CSCCCSTTTCSCC-CCEEECCSSC
T ss_pred             c-cceeCHHHcccCC-ceEEEeeCCC
Confidence            4 4444444333333 5555555443

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.60  E-value=3.1e-08  Score=107.17  Aligned_cols=106  Identities=16%  Similarity=0.120  Sum_probs=52.7

Q ss_pred             CCCccEEEeecccccccchhhhhc-----CCCccEEeccCCcCccc--cchhhhcccccceeeccCCCccccc-----hh
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFES-----MGALKVLDLSYNLDLTQ--LPAEMGALINLRCLNLSNTSIEELP-----SE  587 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~-----l~~L~~L~Ls~~~~i~~--lp~~i~~L~~L~~L~L~~~~i~~lP-----~~  587 (863)
                      .++|++|++++|.+.......+..     .++|++|+|++| .+..  +..-...+.+|++|+|++|.|...+     ..
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASC-QLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTC-CCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCC-CCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHH
Confidence            345666666666554433222222     256666666666 3321  1111224556666666666665321     11


Q ss_pred             h-hcccCccEEecCCCCCccc-----cchhhhcCCCCCceeeccCcc
Q 038405          588 I-MYLKNLKILLLDGMRHFHL-----IPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       588 i-~~L~~L~~L~l~~~~~l~~-----lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      + ...++|++|++++|. +..     ++.. +..+++|++|++++|.
T Consensus       150 L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~-L~~~~~L~~L~Ls~N~  194 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNP-LTAAGVAVLMEG-LAGNTSVTHLSLLHTG  194 (372)
T ss_dssp             HHSTTCCCCEEECCSSC-CHHHHHHHHHHH-HHTCSSCCEEECTTSS
T ss_pred             HHhcCCccceeeCCCCC-CChHHHHHHHHH-HhcCCCcCEEeCCCCC
Confidence            2 134566666666665 322     2222 3456666666666554

>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=98.57  E-value=1e-07  Score=102.57  Aligned_cols=99  Identities=22%  Similarity=0.252  Sum_probs=85.0

Q ss_pred             EEEeccC-CccccCCCC-CCCccEEEeec-ccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCC
Q 038405          504 RLSLWGS-SIEYLPETP-CPHLQTLLVRF-TVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNT  579 (863)
Q Consensus       504 ~l~l~~~-~~~~l~~~~-~~~Lr~L~l~~-~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~  579 (863)
                      .+...++ .+..+|... +++|+.|+|++ |.+..+++..|..+++|++|+|++| .+..+| ..|++|++|++|+|++|
T Consensus        12 ~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           12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EEEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhcCCcCCCEEeCCCC
Confidence            3566666 788888833 78899999996 9999999888999999999999999 676665 57899999999999999


Q ss_pred             CccccchhhhcccCccEEecCCCC
Q 038405          580 SIEELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       580 ~i~~lP~~i~~L~~L~~L~l~~~~  603 (863)
                      .|..+|..+....+|+.|++.+|.
T Consensus        91 ~l~~~~~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           91 ALESLSWKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             CCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             ccceeCHHHcccCCceEEEeeCCC
Confidence            999999876555559999999987

>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=98.57  E-value=3.3e-07  Score=97.36  Aligned_cols=170  Identities=12%  Similarity=0.082  Sum_probs=107.0

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|++..++.+.+++..+..+.+.++|++|+||||+|+.+++...  ...+. ..+.+..+.....            
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~------------   82 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF--GENWRDNFIEMNASDERGI------------   82 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHH--TTCHHHHCEEEETTSTTCT------------
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhc--CCcccCCeEEEeCccccCh------------
Confidence            56899999999999999877666699999999999999999988741  11111 1222333321110            


Q ss_pred             CCcccccccChhhHHHHHHHH--h-ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh---------
Q 038405          232 ISDYIWNMKGEYDRAVEILIS--L-RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC---------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~---------  297 (863)
                              ....+........  + .+++.++|+|+++..  .....+...+.....+.++|+||....-.         
T Consensus        83 --------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  154 (319)
T 2chq_A           83 --------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (319)
T ss_dssp             --------TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCE
T ss_pred             --------HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCe
Confidence                    0111111111111  1 256889999999764  23344444444445677888888665421         


Q ss_pred             ---cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHH
Q 038405          298 ---VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA  347 (863)
Q Consensus       298 ---l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  347 (863)
                         +.+++.++..+++...+......   -..+..+.+++.++|.+-.+....
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          155 VFRFKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTCCC---BCHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence               77889999988888766432211   125677888999999987655433

>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=98.49  E-value=8.4e-07  Score=96.50  Aligned_cols=184  Identities=13%  Similarity=0.128  Sum_probs=105.4

Q ss_pred             ccccchhhHHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|++..++.+...+..+. ...+.|+|++|+||||+|+.+++... ....+.       ...+..-.....+.....
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~-------~~~~~~~~~~~~~~~~~~   87 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGIT-------ATPCGVCDNCREIEQGRF   87 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS-CTTCSC-------SSCCSSSHHHHHHHTSCC
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCCCCC-------CCCCcccHHHHHHhccCC
Confidence            468999999999999997654 35788999999999999999987662 111110       000000001111111000


Q ss_pred             CCcccc--cccChhhHHHHHHHHh-----ccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh-----
Q 038405          232 ISDYIW--NMKGEYDRAVEILISL-----RRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----  297 (863)
Q Consensus       232 ~~~~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~-----  297 (863)
                      ......  ......+....+.+.+     .+++.++|+||++..  .....+...+.....+..+|++|....-.     
T Consensus        88 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~  167 (373)
T 1jr3_A           88 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  167 (373)
T ss_dssp             SSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHH
T ss_pred             CceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHH
Confidence            000000  0000011122233332     356789999999753  23333433333334567777777644321     


Q ss_pred             -------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHH
Q 038405          298 -------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIA  347 (863)
Q Consensus       298 -------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  347 (863)
                             +.+++.++..+++...+.......   ..+....|++.++|.|..+..+.
T Consensus       168 sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~---~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          168 SRCLQFHLKALDVEQIRHQLEHILNEEHIAH---EPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             hheeEeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHCCCCHHHHHHHH
Confidence                   788999999999887653322111   25667889999999998776554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.49  E-value=8.7e-07  Score=92.12  Aligned_cols=157  Identities=7%  Similarity=0.055  Sum_probs=96.3

Q ss_pred             ccchhhHHHHHHHhhc----cCCceEEEEEcCCCChHHHHhhhhhhccccccC-----CCCEEEEEEeCCCCCHHHHHHH
Q 038405          155 TVGADSKLDEVWGCIE----DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNH-----CFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       155 ~vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      +.|||+++++|...|.    ......+.|+|++|+|||++|+.|++.......     .| ..+++......+...+...
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHHHHHH
Confidence            6799999999998874    366778999999999999999999988732111     12 4567777777788899999


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHh---ccCcEEEEEcccccccccccccccC--CCC-CCCeEEEEeecchhh---
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISL---RRKKFVLLLDDVWERLDLSKTGVSL--SDC-QNGSKIVFTTRSEEV---  296 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~~~~~l--~~~-~~gs~iivTTr~~~v---  296 (863)
                      |++++.....  ......+....+.+.+   +++++++|||+++.-.+-+.+...+  +.. .....||.++...+.   
T Consensus       101 I~~~L~g~~~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~  178 (318)
T 3te6_A          101 IWFAISKENL--CGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIRE  178 (318)
T ss_dssp             HHHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHH
T ss_pred             HHHHhcCCCC--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchh
Confidence            9999864421  1111222223333332   4568999999998653211111111  111 111223333432211   


Q ss_pred             h---------------cccCCHHHHHHHHhHhh
Q 038405          297 C---------------VECLSPEAALDLFRYKV  314 (863)
Q Consensus       297 ~---------------l~~L~~~~a~~Lf~~~~  314 (863)
                      .               +.+++.++-.+++..++
T Consensus       179 ~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          179 QINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence            0               67788999988888776

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.48  E-value=1.8e-06  Score=94.63  Aligned_cols=102  Identities=13%  Similarity=0.211  Sum_probs=60.7

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCC-------------------
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNT-------------------  579 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~-------------------  579 (863)
                      |.+|+.+.+.. .++.++...|.++.+|+.+++..+  ++.++ ..+.++..|+.+.+..+                   
T Consensus        70 c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~c~~L~~i~~p~~l~~i~~~aF~~~~~~~~~~  146 (394)
T 4fs7_A           70 CRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS--VKMIGRCTFSGCYALKSILLPLMLKSIGVEAFKGCDFKEITI  146 (394)
T ss_dssp             CTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCTTCCCCCCCTTCCEECTTTTTTCCCSEEEC
T ss_pred             CCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC--ceEccchhhcccccchhhcccCceeeecceeeeccccccccc
Confidence            66777777753 366666666777777777777654  33333 24555566655554322                   


Q ss_pred             --Cccccc-hhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccC
Q 038405          580 --SIEELP-SEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       580 --~i~~lP-~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~  626 (863)
                        .+..++ ..+.++.+|+.+.+.++  +..++.++|.++.+|+.+.+..
T Consensus       147 ~~~~~~i~~~aF~~c~~L~~i~l~~~--~~~I~~~~F~~c~~L~~i~l~~  194 (394)
T 4fs7_A          147 PEGVTVIGDEAFATCESLEYVSLPDS--METLHNGLFSGCGKLKSIKLPR  194 (394)
T ss_dssp             CTTCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCBCCCCT
T ss_pred             CccccccchhhhcccCCCcEEecCCc--cceeccccccCCCCceEEEcCC
Confidence              111121 23556777777777654  4556666677777777777754

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.32  E-value=7.7e-07  Score=86.49  Aligned_cols=46  Identities=17%  Similarity=0.390  Sum_probs=41.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++||++.++++.+.+.....+.+.|+|.+|+|||++|+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987667788999999999999999998875

>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=98.29  E-value=3.1e-06  Score=91.17  Aligned_cols=183  Identities=11%  Similarity=0.114  Sum_probs=105.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccc-cCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV-NHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..++|+++.++.+..++.......+.|+|++|+||||+|+.+++..... ...+ ....+..+.......+...+.....
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  115 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKS-RILELNASDERGISIVREKVKNFAR  115 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT-SEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCccccc-ceEEEccccccchHHHHHHHHHHhh
Confidence            5689999999999999987655558999999999999999998875110 0111 2233444433333332221111100


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------  297 (863)
                      ...    ......   .....-.+++-+|++|+++...  ....+...+.......++|++|....-.            
T Consensus       116 ~~~----~~~~~~---~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~  188 (353)
T 1sxj_D          116 LTV----SKPSKH---DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  188 (353)
T ss_dssp             SCC----CCCCTT---HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             hcc----cccchh---hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEE
Confidence            000    000000   0000112356799999987542  2233333232233456777777544321            


Q ss_pred             cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      +.+++.++..+.+...+.......   ..+..+.|++.++|.|-.+..+
T Consensus       189 ~~~~~~~~~~~~l~~~~~~~~~~i---~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          189 FKALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            778899999888887664322111   2567889999999998765443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.25  E-value=6.4e-06  Score=90.16  Aligned_cols=277  Identities=17%  Similarity=0.167  Sum_probs=156.0

Q ss_pred             ccccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCc------------------
Q 038405          498 SWREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNL------------------  556 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~------------------  556 (863)
                      ....++.+.+. +.++.++...   |++|+.+.+..+ ++.++...|..+..|+.+.+..+-                  
T Consensus        69 ~c~~L~~i~lp-~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~c~~L~~i~~p~~l~~i~~~aF~~~~~~~~~~  146 (394)
T 4fs7_A           69 GCRKVTEIKIP-STVREIGEFAFENCSKLEIINIPDS-VKMIGRCTFSGCYALKSILLPLMLKSIGVEAFKGCDFKEITI  146 (394)
T ss_dssp             TCTTEEEEECC-TTCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCCCCCCTTCCEECTTTTTTCCCSEEEC
T ss_pred             CCCCceEEEeC-CCccCcchhHhhCCCCCcEEEeCCC-ceEccchhhcccccchhhcccCceeeecceeeeccccccccc
Confidence            33467777775 4467776654   889999998755 677777778888888776665320                  


Q ss_pred             --Ccccc-chhhhcccccceeeccCCCccccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhh
Q 038405          557 --DLTQL-PAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL  632 (863)
Q Consensus       557 --~i~~l-p~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~  632 (863)
                        ....+ ...|.++.+|+.+.+..+ +..++.. +.++.+|+.+.+..+  +..++..++.++..|+.+.+..+... +
T Consensus       147 ~~~~~~i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~--~~~I~~~~F~~~~~L~~i~~~~~~~~-i  222 (394)
T 4fs7_A          147 PEGVTVIGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN--LKIIRDYCFAECILLENMEFPNSLYY-L  222 (394)
T ss_dssp             CTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT--CCEECTTTTTTCTTCCBCCCCTTCCE-E
T ss_pred             CccccccchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC--ceEeCchhhccccccceeecCCCceE-e
Confidence              00111 234667889999999765 4556544 778999999999876  67788888999999999887653211 1


Q ss_pred             ccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCccc-ccccccCCcceeEeccCcc
Q 038405          633 HRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHS-IDLRNMMHLETLNIVECSL  711 (863)
Q Consensus       633 ~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~-~~l~~~~~L~~L~l~~~~l  711 (863)
                      ..... ...          .++.+.+.- ....+.  ......+..++.+.+..+...-. ..+..+..|+.+......+
T Consensus       223 ~~~~~-~~~----------~l~~i~ip~-~~~~i~--~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~i  288 (394)
T 4fs7_A          223 GDFAL-SKT----------GVKNIIIPD-SFTELG--KSVFYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVIV  288 (394)
T ss_dssp             CTTTT-TTC----------CCCEEEECT-TCCEEC--SSTTTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSEE
T ss_pred             ehhhc-ccC----------CCceEEECC-Cceecc--cccccccccceeEEcCCCcceeeccccccccccceeccCceee
Confidence            00000 111          222222110 000000  01123355666666654432211 1266667777776655432


Q ss_pred             cccCCCCCCCCCCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccc
Q 038405          712 ERVDPTFNGWTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLD  789 (863)
Q Consensus       712 ~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~  789 (863)
                      ...     .+..+.+|+.+.+..+  ++.+  ..+..+++|+.+.|...  ++.|..        ..+.++.+|+.+.|.
T Consensus       289 ~~~-----~F~~~~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~~--v~~I~~--------~aF~~c~~L~~i~lp  351 (394)
T 4fs7_A          289 PEK-----TFYGCSSLTEVKLLDS--VKFIGEEAFESCTSLVSIDLPYL--VEEIGK--------RSFRGCTSLSNINFP  351 (394)
T ss_dssp             CTT-----TTTTCTTCCEEEECTT--CCEECTTTTTTCTTCCEECCCTT--CCEECT--------TTTTTCTTCCEECCC
T ss_pred             ccc-----cccccccccccccccc--cceechhhhcCCCCCCEEEeCCc--ccEEhH--------HhccCCCCCCEEEEC
Confidence            211     3446777888877653  3333  23667778888877532  333321        234455666666664


Q ss_pred             cccccccccc-CccCCCCccEEeec
Q 038405          790 SLPSLKRICH-GTMPFPSLQNVSVT  813 (863)
Q Consensus       790 ~~~~L~~l~~-~~~~~~~L~~L~i~  813 (863)
                      .  +++.+.. ....+++|+.+.+.
T Consensus       352 ~--~l~~I~~~aF~~C~~L~~i~lp  374 (394)
T 4fs7_A          352 L--SLRKIGANAFQGCINLKKVELP  374 (394)
T ss_dssp             T--TCCEECTTTBTTCTTCCEEEEE
T ss_pred             c--cccEehHHHhhCCCCCCEEEEC
Confidence            2  2444432 12234455555543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.24  E-value=3.1e-06  Score=88.08  Aligned_cols=159  Identities=17%  Similarity=0.212  Sum_probs=92.0

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      ++++|.++.++++.+.+..             ...+-+.|+|++|+|||+||+.+++..   ...   .+.+..+.-.  
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~~--   88 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSELV--   88 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGGC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHHH--
Confidence            5689999999999887732             345679999999999999999999876   222   2233322110  


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHH-HHHhccCcEEEEEccccccc----------------ccccccccCC--C
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEI-LISLRRKKFVLLLDDVWERL----------------DLSKTGVSLS--D  280 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~~~----------------~~~~~~~~l~--~  280 (863)
                                  ...    ..........+ ......++.+|+|||++...                .+..+...+.  .
T Consensus        89 ------------~~~----~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  152 (285)
T 3h4m_A           89 ------------KKF----IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFD  152 (285)
T ss_dssp             ------------CCS----TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTC
T ss_pred             ------------Hhc----cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCC
Confidence                        000    01111122222 22234466899999997531                1111111111  1


Q ss_pred             CCCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC
Q 038405          281 CQNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      ...+..||.||......               +...+.++..+++...+..........    ...+++.+.|.
T Consensus       153 ~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~  222 (285)
T 3h4m_A          153 ARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGC  222 (285)
T ss_dssp             SSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTC
T ss_pred             CCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCC
Confidence            23456777787654322               667888888899888765433222222    45667777764

>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=98.24  E-value=1.3e-06  Score=88.30  Aligned_cols=161  Identities=9%  Similarity=0.062  Sum_probs=93.3

Q ss_pred             ccccch---hhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          153 EKTVGA---DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       153 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      +.++|.   +..++.+..+......+.+.|+|++|+||||+|+.+++...   .....+.|+..+....          .
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~----------~   94 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHAS----------I   94 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGG----------S
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHH----------H
Confidence            457763   35566666666655678899999999999999999998762   1223456666533110          0


Q ss_pred             cCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc----cccccccCCC-CCCC-eEEEEeecchhh------h
Q 038405          230 LDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD----LSKTGVSLSD-CQNG-SKIVFTTRSEEV------C  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~~~~~l~~-~~~g-s~iivTTr~~~v------~  297 (863)
                      +            .+.    .+.+ .++.+||+||++....    ...+...+.. ...+ .++|+||+...-      .
T Consensus        95 ~------------~~~----~~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           95 S------------TAL----LEGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             C------------GGG----GTTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             H------------HHH----HHhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence            0            000    0011 3567899999976421    1222221110 0112 247777764321      0


Q ss_pred             -------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          298 -------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       298 -------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                                   +.+++.++..+++...+.....   .-..+..+.+++.++|.+-.+..+
T Consensus       158 ~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~l~~~  216 (242)
T 3bos_A          158 DLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL---QLPEDVGRFLLNRMARDLRTLFDV  216 (242)
T ss_dssp             HHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC---CCCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             hhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHccCCHHHHHHH
Confidence                         6778888888888776642221   112567778888888887655543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.22  E-value=4.7e-07  Score=97.86  Aligned_cols=126  Identities=17%  Similarity=0.117  Sum_probs=78.6

Q ss_pred             cceEEEeccCCcccc--CCCC--CCCccEEEeecccccccchhhh-----hcCCCccEEeccCCcCccc-----cchhhh
Q 038405          501 EDFRLSLWGSSIEYL--PETP--CPHLQTLLVRFTVLEIFPHRFF-----ESMGALKVLDLSYNLDLTQ-----LPAEMG  566 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l--~~~~--~~~Lr~L~l~~~~l~~l~~~~~-----~~l~~L~~L~Ls~~~~i~~-----lp~~i~  566 (863)
                      .++.+++.+|.+...  ....  +++|+.|++++|.+.......+     ...+.|++|+|++| .+..     ++..+.
T Consensus       102 ~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~L~  180 (372)
T 3un9_A          102 ALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNN-PLTAAGVAVLMEGLA  180 (372)
T ss_dssp             CEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSS-CCHHHHHHHHHHHHH
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCC-CCChHHHHHHHHHHh
Confidence            566777777766431  1111  5677788888776654433322     23567888888877 4432     455556


Q ss_pred             cccccceeeccCCCccc-----cchhhhcccCccEEecCCCCCccc-----cchhhhcCCCCCceeeccCcch
Q 038405          567 ALINLRCLNLSNTSIEE-----LPSEIMYLKNLKILLLDGMRHFHL-----IPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       567 ~L~~L~~L~L~~~~i~~-----lP~~i~~L~~L~~L~l~~~~~l~~-----lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      .+++|++|+|++|.|..     ++..+...++|++|++++|. +..     ++.. +...++|++|++++|.+
T Consensus       181 ~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~-i~~~g~~~l~~~-L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          181 GNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG-AGDTAALALARA-AREHPSLELLHLYFNEL  251 (372)
T ss_dssp             TCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC-CCHHHHHHHHHH-HHHCSSCCEEECTTSSC
T ss_pred             cCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC-CCHHHHHHHHHH-HHhCCCCCEEeccCCCC
Confidence            67778888888877663     35556667778888888776 332     2222 44567788888877764

>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=98.15  E-value=4.5e-05  Score=78.58  Aligned_cols=186  Identities=15%  Similarity=0.083  Sum_probs=96.8

Q ss_pred             ccccchhhHHHHHHH-------hhc---cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHH
Q 038405          153 EKTVGADSKLDEVWG-------CIE---DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKI  222 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~  222 (863)
                      ..++|....++++..       .+.   ....+.+.|+|++|+|||++|+.+++..   ...|   +.+..+..      
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~---~~i~~~~~------  100 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDK------  100 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGG------
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEeCHHH------
Confidence            457787777666665       232   3456779999999999999999999875   2222   22222210      


Q ss_pred             HHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc-----------cc-cccccccCC---CCCCCeEE
Q 038405          223 QEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER-----------LD-LSKTGVSLS---DCQNGSKI  287 (863)
Q Consensus       223 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~-~~~~~~~l~---~~~~gs~i  287 (863)
                            ..+..    ...........+......+..+|+|||++..           .. +..+...+.   .......|
T Consensus       101 ------~~g~~----~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          101 ------MIGFS----ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             ------CTTCC----HHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             ------hcCCc----hHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence                  00100    0000011112222233456889999998753           11 111211121   12334456


Q ss_pred             EEeecchhhh--------------cccCCH-HHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCC------ChHHHHHH
Q 038405          288 VFTTRSEEVC--------------VECLSP-EAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKG------LPLALITI  346 (863)
Q Consensus       288 ivTTr~~~v~--------------l~~L~~-~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g------lPLai~~~  346 (863)
                      |.||......              +.+++. ++...++.....        -..+....|++.+.|      .+-++..+
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~~--------~~~~~~~~l~~~~~g~~~~g~ir~l~~~l  242 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGN--------FKDKERTTIAQQVKGKKVWIGIKKLLMLI  242 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHTC--------SCHHHHHHHHHHHTTSEEEECHHHHHHHH
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcCC--------CCHHHHHHHHHHhcCCCccccHHHHHHHH
Confidence            6677765331              455555 555555544211        114567788888877      33444333


Q ss_pred             HHHHhCCCChhhHHHHHHHHhcC
Q 038405          347 ARAMSSRRSPREWQYVIDELQRN  369 (863)
Q Consensus       347 ~~~l~~~~~~~~w~~~~~~l~~~  369 (863)
                      -... .......+..+++.+...
T Consensus       243 ~~a~-~~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          243 EMSL-QMDPEYRVRKFLALLREE  264 (272)
T ss_dssp             HHHT-TSCGGGHHHHHHHHHHHT
T ss_pred             HHHh-hhchHHHHHHHHHHHHHc
Confidence            3332 224456677777666554

>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=98.14  E-value=1.2e-05  Score=90.81  Aligned_cols=178  Identities=11%  Similarity=0.110  Sum_probs=102.5

Q ss_pred             ccccchhhHHHHHHHhhcc-----------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          153 EKTVGADSKLDEVWGCIED-----------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      .+++|++..++++.+++..                 +..+.+.|+|++|+||||+|+.+++..   .  + .++.+..+.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l---~--~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc---C--C-CEEEEeCCC
Confidence            5689999999999999964                 134789999999999999999999876   1  1 234555555


Q ss_pred             CCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH--HhccCcEEEEEcccccccc-----cccccccCCCCCCCeEEE
Q 038405          216 EGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI--SLRRKKFVLLLDDVWERLD-----LSKTGVSLSDCQNGSKIV  288 (863)
Q Consensus       216 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~--~l~~k~~LlVlDdv~~~~~-----~~~~~~~l~~~~~gs~ii  288 (863)
                      ......+ ...+.......      ..........+  ...+++.+||+|+++....     +..+...+..  .+..||
T Consensus       113 ~~~~~~~-~~~i~~~~~~~------~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iI  183 (516)
T 1sxj_A          113 VRSKTLL-NAGVKNALDNM------SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLI  183 (516)
T ss_dssp             CCCHHHH-HHTGGGGTTBC------CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEE
T ss_pred             cchHHHH-HHHHHHHhccc------cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEE
Confidence            4443322 22222111100      00000000000  1235788999999976421     1222211111  223455


Q ss_pred             Eeecchh---hh----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHHHH
Q 038405          289 FTTRSEE---VC----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITIAR  348 (863)
Q Consensus       289 vTTr~~~---v~----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~~  348 (863)
                      +++....   +.          +.+++.++..+.+...+.......+   .+....|++.++|. +-|+..+..
T Consensus       184 li~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~---~~~l~~la~~s~GdiR~~i~~L~~  254 (516)
T 1sxj_A          184 LICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLLST  254 (516)
T ss_dssp             EEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHHTH
T ss_pred             EEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            5554432   11          7778999999888776644332222   34577899999994 555555543

>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=98.12  E-value=5.5e-06  Score=89.25  Aligned_cols=184  Identities=9%  Similarity=0.052  Sum_probs=97.7

Q ss_pred             ccccchhhHHHHHHHhh-ccCCceEEEEEcCCCChHHHHhhhhhhccccc-cC--CCCEE--------------------
Q 038405          153 EKTVGADSKLDEVWGCI-EDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV-NH--CFDLV--------------------  208 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~--~F~~~--------------------  208 (863)
                      ++++|.+..++.+.+++ ..+....+.|+|+.|+||||+|+.++...... .+  .++..                    
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~   93 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   93 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccce
Confidence            56899999999999998 66555559999999999999999988743110 01  01110                    


Q ss_pred             EEEEeCCCC-CHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCe
Q 038405          209 IFVAVSKEG-NLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGS  285 (863)
Q Consensus       209 ~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs  285 (863)
                      +.+..+... ......+++++.+.....      ..... .+ ..+.+++-++|+|++....  ....+...+.....+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~  165 (354)
T 1sxj_E           94 LEITPSDMGNNDRIVIQELLKEVAQMEQ------VDFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  165 (354)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             EEecHhhcCCcchHHHHHHHHHHHHhcc------ccccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCC
Confidence            111111000 000011112211110000      00000 00 0023467799999997631  1222322222223467


Q ss_pred             EEEEeecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          286 KIVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       286 ~iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      .+|++|....-.            +.+++.++..+.+...+.......+  ..+....|++.++|.+-.+..+
T Consensus       166 ~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          166 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHHHHHHH
T ss_pred             EEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCCHHHHHHH
Confidence            888877664321            7789999999988877643221111  0356788899999988655443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.11  E-value=2.9e-05  Score=85.54  Aligned_cols=164  Identities=16%  Similarity=0.121  Sum_probs=97.3

Q ss_pred             ccccchhhHH---HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHH
Q 038405          153 EKTVGADSKL---DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~  228 (863)
                      +++||.+..+   ..+...+.......+.|+|.+|+||||+|+.+++..   ...|     +.++.. .....+. .++ 
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f-----~~l~a~~~~~~~ir-~~~-   95 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADV-----ERISAVTSGVKEIR-EAI-   95 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEE-----EEEETTTCCHHHHH-HHH-
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCe-----EEEEeccCCHHHHH-HHH-
Confidence            5689999888   778888877777889999999999999999999876   2222     222211 1222211 111 


Q ss_pred             HcCCCcccccccChhhHHHHHHH-HhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh--------
Q 038405          229 KLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC--------  297 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~--------  297 (863)
                                        ..... ...+++.+|++|+++...  ....+...+.. +.-.-|..||.+....        
T Consensus        96 ------------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           96 ------------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-GTITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             ------------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT-TSCEEEEEESSCGGGSSCHHHHTT
T ss_pred             ------------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-CceEEEecCCCCcccccCHHHhCc
Confidence                              11111 124678899999997642  23333322222 2222233355554322        


Q ss_pred             -----cccCCHHHHHHHHhHhhCccc--c--CCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          298 -----VECLSPEAALDLFRYKVGEDV--F--NSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       298 -----l~~L~~~~a~~Lf~~~~~~~~--~--~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                           +.+++.++...++...+....  .  ....-..+..+.+++.++|.+-.+..
T Consensus       157 ~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln  213 (447)
T 3pvs_A          157 ARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALN  213 (447)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHH
T ss_pred             eeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHH
Confidence                 888999999998887753210  0  00111256778888889988754443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.09  E-value=6.3e-06  Score=88.22  Aligned_cols=81  Identities=17%  Similarity=0.037  Sum_probs=45.1

Q ss_pred             hcCCCccEEeccCCcC---------ccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhh
Q 038405          542 ESMGALKVLDLSYNLD---------LTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARV  612 (863)
Q Consensus       542 ~~l~~L~~L~Ls~~~~---------i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~  612 (863)
                      ..+++|+.|.+.+...         ...++..+..+++|+.|+|++|.-..+|. + .+++|++|++..|. +..-....
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~-l~~~~l~~  212 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGG-LPDSVVED  212 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSB-CCHHHHHH
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCC-CChHHHHH
Confidence            4556666666644310         11344555667778888877763224444 3 36778888877665 22111111


Q ss_pred             hc--CCCCCceeecc
Q 038405          613 FS--SLLSLKVFSLF  625 (863)
Q Consensus       613 i~--~L~~L~~L~l~  625 (863)
                      +.  .+++|++|+++
T Consensus       213 l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          213 ILGSDLPNLEKLVLY  227 (362)
T ss_dssp             HHHSBCTTCCEEEEE
T ss_pred             HHHccCCCCcEEEEe
Confidence            22  67777777765

>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=98.04  E-value=3.8e-05  Score=81.17  Aligned_cols=167  Identities=16%  Similarity=0.159  Sum_probs=95.9

Q ss_pred             ccccchhhHHHHHHHhhc----------c--CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIE----------D--QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++.+.+.+.          .  ...+-|.++|++|+|||+||+.+++..   ...|   +.++.      .
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~~---~~v~~------~   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTF---FSVSS------S   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCEE---EEEEH------H
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCCE---EEEch------H
Confidence            568899999999988772          1  123568999999999999999999876   2222   22322      1


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHH-hccCcEEEEEcccccccc-------------cccccc---cCCCCCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERLD-------------LSKTGV---SLSDCQN  283 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-------------~~~~~~---~l~~~~~  283 (863)
                      .+    ....        ....+.....+.+. -..++.+|+||+++....             ...+..   .+.....
T Consensus        86 ~l----~~~~--------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 DL----VSKW--------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             HH----HTTT--------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             HH----hhcc--------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence            11    1110        01112222233222 234678999999985311             111111   1112334


Q ss_pred             CeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHH
Q 038405          284 GSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITI  346 (863)
Q Consensus       284 gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~  346 (863)
                      +..||.||......             +...+.++-.+++...+......   -.......|++.+.|. +-.|..+
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~---~~~~~l~~la~~t~g~sg~di~~l  227 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCV---LTKEDYRTLGAMTEGYSGSDIAVV  227 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC---CCHHHHHHHHHTTTTCCHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCC---CCHHHHHHHHHHcCCCCHHHHHHH
Confidence            55666677654332             56677788888888776543211   1245667888888874 4344433

>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=98.03  E-value=2.8e-05  Score=85.81  Aligned_cols=171  Identities=18%  Similarity=0.165  Sum_probs=97.0

Q ss_pred             cccc-chhh--HHHHHHHhhccCC-ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          153 EKTV-GADS--KLDEVWGCIEDQS-EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~v-Gr~~--~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      +.|| |...  ....+........ ...+.|+|.+|+||||||+.+++.... ...-..+++++..      .+..++..
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~-~~~~~~v~~v~~~------~~~~~~~~  177 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQ-NEPDLRVMYITSE------KFLNDLVD  177 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHH-HCCSSCEEEEEHH------HHHHHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeHH------HHHHHHHH
Confidence            3455 6433  2333444444433 677999999999999999999987621 1111234555432      33344444


Q ss_pred             HcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc----cccccccCCC-CCCCeEEEEeecchhhh------
Q 038405          229 KLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD----LSKTGVSLSD-CQNGSKIVFTTRSEEVC------  297 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~~~~~l~~-~~~gs~iivTTr~~~v~------  297 (863)
                      .+...       .    ...+.+.++.+.-+|++||++....    .+.+...+.. ...|..||+||.+..-.      
T Consensus       178 ~~~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~  246 (440)
T 2z4s_A          178 SMKEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQD  246 (440)
T ss_dssp             HHHTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCH
T ss_pred             HHHcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHH
Confidence            33211       1    1223334444677999999975432    1222222211 23467899988863211      


Q ss_pred             -------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 -------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 -------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                                   +.+++.++-.+++...+.......+   .+....|++.++|.+-.+.
T Consensus       247 ~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~  303 (440)
T 2z4s_A          247 RLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLR  303 (440)
T ss_dssp             HHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHH
T ss_pred             HHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHH
Confidence                         6677888888888877643222222   3456778888888875443

>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=98.02  E-value=4e-05  Score=82.26  Aligned_cols=169  Identities=12%  Similarity=0.074  Sum_probs=94.5

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++++.+.+..            ...+.|.|+|++|+|||+||+.+++..   ..   ..+.+..+.-..  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~~--  155 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLTS--  155 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGCC--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhhc--
Confidence            5689999999999887731            345679999999999999999998875   22   223444332110  


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHH-hccCcEEEEEccccccc-------------ccccccccCC----CCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERL-------------DLSKTGVSLS----DCQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~-------------~~~~~~~~l~----~~~  282 (863)
                                  ..    ..........+... -..++.+|+||+++...             ....+...+.    ...
T Consensus       156 ------------~~----~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          156 ------------KW----VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             ------------SS----TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             ------------cc----cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence                        00    00111122222222 23567899999996421             0111211111    122


Q ss_pred             CCeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHHHH
Q 038405          283 NGSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITIAR  348 (863)
Q Consensus       283 ~gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~~  348 (863)
                      .+..||.||......             +...+.++..+++...+......   -..+....|++.+.|. +-.+..+..
T Consensus       220 ~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          220 DRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC---LSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC---CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC---ccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345566666543221             55567777777777665322111   1145677888888884 445554433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.02  E-value=0.00022  Score=75.12  Aligned_cols=169  Identities=14%  Similarity=0.126  Sum_probs=94.6

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      ++++|.++.++.+.+.+.-            ...+-|.++|++|+|||+||+.+++...  ..   ..+.+..+.-.   
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~~---~~~~i~~~~l~---   83 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--NS---TFFSISSSDLV---   83 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT--SC---EEEEEECCSSC---
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC--CC---cEEEEEhHHHH---
Confidence            5688999988888876621            2236789999999999999999998751  11   22333333211   


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHH-hccCcEEEEEcccccccc-------------ccccccc---CCCCCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERLD-------------LSKTGVS---LSDCQN  283 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-------------~~~~~~~---l~~~~~  283 (863)
                                 ..   +... .+.....+.+. -..++.+|++|+++....             ...+...   +.....
T Consensus        84 -----------~~---~~g~-~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           84 -----------SK---WLGE-SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             -----------CS---SCCS-CHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             -----------hh---hhhH-HHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                       00   0111 12222333332 235788999999975310             0011111   111234


Q ss_pred             CeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHHHHH
Q 038405          284 GSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALITIA  347 (863)
Q Consensus       284 gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  347 (863)
                      +..||.||......             +...+.++-.+++...+.......   .......|++.+.|.. -.|..+.
T Consensus       149 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL---TEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC---CHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            55566666544322             556677777788877664322111   2456788889988874 3344443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.01  E-value=4.2e-05  Score=81.62  Aligned_cols=160  Identities=11%  Similarity=0.031  Sum_probs=94.2

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      ++++|++..++++..++..     .....|.|+|++|+|||++|+.+++..   ...|   +.+..+.......+.    
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~~~----   98 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SANI---KTTAAPMIEKSGDLA----   98 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCCE---EEEEGGGCCSHHHHH----
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCCe---EEecchhccchhHHH----
Confidence            5789999999999988853     345678999999999999999998875   2332   223322111111111    


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCC------------------CCCCCeEE
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLS------------------DCQNGSKI  287 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~------------------~~~~gs~i  287 (863)
                                         ..+. . ..+..+|+||+++...  ....+...+.                  ...++..+
T Consensus        99 -------------------~~~~-~-~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           99 -------------------AILT-N-LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             -------------------HHHH-T-CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             -------------------HHHH-h-ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                               1111 0 1355678888887531  1111111100                  01113456


Q ss_pred             EEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHH
Q 038405          288 VFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITI  346 (863)
Q Consensus       288 ivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  346 (863)
                      |.||......             +.+++.++..+++...+......   -..+..+.+++.+.|.|-.+..+
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~l~~~  226 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKT---CEEKAALEIAKRSRSTPRIALRL  226 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCE---ECHHHHHHHHHTTTTCHHHHHHH
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHCcCHHHHHHH
Confidence            6666543211             78889999999888776432211   12567788889999998554433

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.01  E-value=0.00012  Score=80.00  Aligned_cols=99  Identities=16%  Similarity=0.160  Sum_probs=43.4

Q ss_pred             ccEEEeecccccccchhhhhcCCCccEEeccCC--cCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEEe
Q 038405          523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN--LDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILL  598 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~--~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~  598 (863)
                      |+.+.+..+ ++.+....|.++.+|+.+.+..+  ..++.++. .|.++.+|+.+.+..+ +..++.. +..+.+|+.+.
T Consensus        66 L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~~i~  143 (394)
T 4gt6_A           66 LTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELDTVT  143 (394)
T ss_dssp             CCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCCEEE
T ss_pred             CEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhccccccc
Confidence            455554432 44455555555555555555443  11233322 3344445554444332 3333322 34445555555


Q ss_pred             cCCCCCccccchhhhcCCCCCceeecc
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLF  625 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~  625 (863)
                      +..+  +..++..++..+.+|+.+.+.
T Consensus       144 lp~~--~~~I~~~~F~~c~~L~~i~~~  168 (394)
T 4gt6_A          144 IPEG--VTSVADGMFSYCYSLHTVTLP  168 (394)
T ss_dssp             CCTT--CCEECTTTTTTCTTCCEEECC
T ss_pred             ccce--eeeecccceeccccccccccc
Confidence            5432  333444444444555544443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.01  E-value=1e-05  Score=85.30  Aligned_cols=45  Identities=18%  Similarity=0.257  Sum_probs=36.0

Q ss_pred             cccchhhHHHHHHHhhc---------------cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE---------------DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..++.+.+.+.               ......+.|+|.+|+|||++|+.+++..
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            47899888888876653               2344578999999999999999888766

>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=98.00  E-value=3.5e-05  Score=81.66  Aligned_cols=165  Identities=12%  Similarity=0.060  Sum_probs=94.7

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|.+..++.+.+++..... .++.+.|++|+|||++|+.+++..   .   ...+.++.+.. ....+...+.+...
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~~i~~~~~~~~~   98 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KIDFVRGPLTNFAS   98 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHHHHHTHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHHHHHHHHHHHHh
Confidence            5689999999999999976543 577888889999999999998875   1   12344544332 22222111111000


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc---ccccccccCCCCCCCeEEEEeecchhhh-----------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL---DLSKTGVSLSDCQNGSKIVFTTRSEEVC-----------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~~~~~~l~~~~~gs~iivTTr~~~v~-----------  297 (863)
                      ..                  ...+++.+||+||++...   ....+...+.....+.++|+||....-.           
T Consensus        99 ~~------------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i  160 (324)
T 3u61_B           99 AA------------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVI  160 (324)
T ss_dssp             BC------------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEE
T ss_pred             hc------------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEE
Confidence            00                  012367899999998643   2222322222222456788887764422           


Q ss_pred             -cccCCHHHHHHHH-------hHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          298 -VECLSPEAALDLF-------RYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       298 -l~~L~~~~a~~Lf-------~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                       +++++.++-.+++       ...+.......++  .+....+++.++|.+-.+.
T Consensus       161 ~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          161 TFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHH
Confidence             6677777743332       2222222111111  2677888888888765433

>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=97.98  E-value=4.3e-05  Score=78.24  Aligned_cols=164  Identities=12%  Similarity=0.096  Sum_probs=88.7

Q ss_pred             ccccchhhHHHHHHHhhc---c---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIE---D---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++++.+++.   .         ...+-|.|+|++|+|||++|+.+++..   ...   .+.+..+.-.+  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~~~~~~~~~--   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVP---FLAMAGAEFVE--   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCC---EEEEETTTTSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEechHHHHh--
Confidence            468899988877766542   1         223568899999999999999999876   222   23344332110  


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc-------------c----cccccccCCC--C
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL-------------D----LSKTGVSLSD--C  281 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------------~----~~~~~~~l~~--~  281 (863)
                              ..       ...........+.......+.+|++|+++...             .    +..+...+..  .
T Consensus        78 --------~~-------~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           78 --------VI-------GGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             --------SS-------TTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             --------hc-------cChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence                    00       01111111222222333467899999997531             1    1111111111  2


Q ss_pred             CCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          282 QNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       282 ~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      ..+..||.||......               +...+.++-.+++...+....  ...........+++.+.|.+-
T Consensus       143 ~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~--~~~~~~~~~~~l~~~~~g~~~  215 (262)
T 2qz4_A          143 TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK--LTQSSTFYSQRLAELTPGFSG  215 (262)
T ss_dssp             TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT--CCBTHHHHHHHHHHTCTTCCH
T ss_pred             CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC--CCcchhhHHHHHHHHCCCCCH
Confidence            2355666777544321               556778888888877654322  111222345778888888754

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.94  E-value=0.00018  Score=78.14  Aligned_cols=167  Identities=14%  Similarity=0.103  Sum_probs=91.7

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++.+.+++..            ...+-|.|+|.+|+|||+||+.+++..   ..   ..+.+..+.-..  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~---~~~~v~~~~l~~--  186 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NA---TFFNISAASLTS--  186 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEECSCCC----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cC---cEEEeeHHHhhc--
Confidence            5689999999999988721            234678999999999999999998875   22   223333322111  


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHh-ccCcEEEEEccccccc--------c-----cccccccC---CC-CC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISL-RRKKFVLLLDDVWERL--------D-----LSKTGVSL---SD-CQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~--------~-----~~~~~~~l---~~-~~  282 (863)
                      ..               .... ......+.+.. .....+|+||+++...        .     ...+...+   .. ..
T Consensus       187 ~~---------------~g~~-~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          187 KY---------------VGEG-EKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             --------------------C-HHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             cc---------------cchH-HHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence            00               0011 11222222222 3456899999997530        0     01111111   11 12


Q ss_pred             CCeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHH
Q 038405          283 NGSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITI  346 (863)
Q Consensus       283 ~gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  346 (863)
                      ....||.||......             +...+.++..+++...+......   -..+....+++.+.|..- ++..+
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP---LTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC---SCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHcCCCCHHHHHHH
Confidence            234555566543322             55667788888887766432211   124566788888888653 44443

>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=97.92  E-value=6.4e-05  Score=80.47  Aligned_cols=167  Identities=16%  Similarity=0.132  Sum_probs=93.3

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++.+.+.+..            ...+-|.|+|++|+|||+||+.+++..   ...   .+.+..+      
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~---~~~v~~~------  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS------  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCE---EEEEEHH------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCC---EEEeeHH------
Confidence            5688999999999887721            123458899999999999999999876   222   2223221      


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEcccccccc-------------cccccccC---CCCCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERLD-------------LSKTGVSL---SDCQN  283 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~-------------~~~~~~~l---~~~~~  283 (863)
                      .+    ....       ... .+.....+.. .-..++.+|+||+++....             ...+...+   .....
T Consensus       119 ~l----~~~~-------~g~-~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 DL----VSKW-------MGE-SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             HH----HSCC-----------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             HH----hhhh-------cch-HHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            11    1111       011 1222222222 2235789999999985321             11111111   11234


Q ss_pred             CeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHH
Q 038405          284 GSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITI  346 (863)
Q Consensus       284 gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~  346 (863)
                      +..||.||......             +...+.++-.+++...+.......   -......|++.+.|. +-.|..+
T Consensus       187 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~---~~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          187 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVL---TKEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             CEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCC---CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC---CHHHHHHHHHHcCCCCHHHHHHH
Confidence            55566677654322             566677777888887765332111   145667888888884 4334433

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.91  E-value=2.9e-05  Score=74.71  Aligned_cols=46  Identities=20%  Similarity=0.349  Sum_probs=41.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++||+.+++.+.+.+.....+.+.|+|.+|+||||+|+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987667778999999999999999998875

>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=97.90  E-value=6e-05  Score=80.45  Aligned_cols=164  Identities=12%  Similarity=0.188  Sum_probs=93.5

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ..++|.+..++.+...+..+..+.+.++|+.|+||||+|+.++....  ...+. .+..+..+.......+...+ .   
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~~~~~~~~~~~~~ir~~i-~---   98 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVVRNQI-K---   98 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHHHTHH-H---
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc--CCCccceEEEEcCcccccHHHHHHHH-H---
Confidence            45789999999999988877665589999999999999999988751  11111 11222222222222111111 1   


Q ss_pred             CCcccccccChhhHHHHHHHH---hccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhh----------
Q 038405          232 ISDYIWNMKGEYDRAVEILIS---LRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEV----------  296 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~---l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v----------  296 (863)
                                      .+.+.   +.+.+-++|+|+++...  ....+...+......+++|++|....-          
T Consensus        99 ----------------~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~  162 (340)
T 1sxj_C           99 ----------------DFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  162 (340)
T ss_dssp             ----------------HHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             ----------------HHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhce
Confidence                            11100   12346789999997532  222232222222345677777754431          


Q ss_pred             --hcccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          297 --CVECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       297 --~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                        .+.+++.++..+.+...+.......   ..+..+.|++.++|.+-
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~~i---~~~~~~~i~~~s~G~~r  206 (340)
T 1sxj_C          163 RFRFQPLPQEAIERRIANVLVHEKLKL---SPNAEKALIELSNGDMR  206 (340)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCB---CHHHHHHHHHHHTTCHH
T ss_pred             eEeccCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHH
Confidence              1667888887777766552211111   14566778888888765

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.89  E-value=0.00013  Score=76.10  Aligned_cols=167  Identities=11%  Similarity=0.072  Sum_probs=93.0

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.+..++.+.+.+..            ...+.+.|+|++|+||||+|+.+++..   ...   .+.+..+.-..  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~~---~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SAT---FLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TCE---EEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEeeHHHHhh--
Confidence            5689999999999887732            235678999999999999999999876   222   23333322110  


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEccccccccc-------------cccc---ccCCC--C
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERLDL-------------SKTG---VSLSD--C  281 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~-------------~~~~---~~l~~--~  281 (863)
                                  .    ...........+.. ....++.+|++|+++....-             ..+.   ..++.  .
T Consensus        93 ------------~----~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  156 (297)
T 3b9p_A           93 ------------K----YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPD  156 (297)
T ss_dssp             ------------S----SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC----
T ss_pred             ------------c----ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCC
Confidence                        0    01111222222222 22356789999999753110             0111   11111  1


Q ss_pred             CCCeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHH
Q 038405          282 QNGSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITI  346 (863)
Q Consensus       282 ~~gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  346 (863)
                      +.+..||.||......             +...+.++...++...+.....   +-.......+++.+.|.+- ++..+
T Consensus       157 ~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          157 GDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGS---PLDTEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             --CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSC---CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            2345566677654321             4455666666777665533211   1114566788888888775 44443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.89  E-value=4.4e-05  Score=82.60  Aligned_cols=46  Identities=17%  Similarity=0.212  Sum_probs=36.7

Q ss_pred             ccccchhhHHHH---HHHhhccCCc--eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDE---VWGCIEDQSE--QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+||++..++.   +.+.+.....  +.+.|+|++|+|||++|+.+++..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999988766   4445544433  589999999999999999999887

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.88  E-value=0.00022  Score=77.86  Aligned_cols=265  Identities=11%  Similarity=0.135  Sum_probs=145.2

Q ss_pred             ceEEEeccCCccccCCCC---CCCccEEEeecc---cccccchhhhhcCCCccEEeccCCcCccccc-hhhhccccccee
Q 038405          502 DFRLSLWGSSIEYLPETP---CPHLQTLLVRFT---VLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCL  574 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~---~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L  574 (863)
                      ++.+.+. +.++.+....   |.+|+.+.+..+   .++.+....|..+..|+.+.+..+  +..++ ..+.++.+|+.+
T Consensus        66 L~sI~iP-~svt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~--~~~I~~~aF~~c~~L~~i  142 (394)
T 4gt6_A           66 LTSVQIP-DTVTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS--VTEIDSEAFHHCEELDTV  142 (394)
T ss_dssp             CCEEEEC-TTCCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT--CSEECTTTTTTCTTCCEE
T ss_pred             CEEEEEC-CCeeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc--cceehhhhhhhhcccccc
Confidence            5666665 3466666554   899999999876   478888888999999998888765  44454 356788999999


Q ss_pred             eccCCCccccch-hhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccc
Q 038405          575 NLSNTSIEELPS-EIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI  653 (863)
Q Consensus       575 ~L~~~~i~~lP~-~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L  653 (863)
                      .+..+ +..++. .+..+.+|+.+.+.++  +..+...+|.. .+|..+.+..+- ..+....+.....+.......+..
T Consensus       143 ~lp~~-~~~I~~~~F~~c~~L~~i~~~~~--~~~I~~~aF~~-~~l~~i~ip~~~-~~i~~~af~~c~~l~~~~~~~~~~  217 (394)
T 4gt6_A          143 TIPEG-VTSVADGMFSYCYSLHTVTLPDS--VTAIEERAFTG-TALTQIHIPAKV-TRIGTNAFSECFALSTITSDSESY  217 (394)
T ss_dssp             ECCTT-CCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTT-CCCSEEEECTTC-CEECTTTTTTCTTCCEEEECCSSS
T ss_pred             cccce-eeeecccceecccccccccccce--eeEeccccccc-cceeEEEECCcc-cccccchhhhccccceeccccccc
Confidence            99754 555554 4778899999999765  67777776654 678888876422 111111111222222111111000


Q ss_pred             eeeEEeecCchhhhh-hhccccccccccEEEecccCC-cccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEE
Q 038405          654 YEISITLGSASALFK-INFSWKLCSCIKRLTIMHNLD-SHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLS  731 (863)
Q Consensus       654 ~~l~~~~~~~~~l~~-l~~~~~~~~~L~~L~l~~~~~-~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~  731 (863)
                      ....-.+........ ..........+..+.+...-. ...-.|.++..|+.+.+... +..+...  .+..+++|+.+.
T Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~v~~i~~~aF~~c~~L~~i~lp~~-~~~I~~~--aF~~c~~L~~i~  294 (394)
T 4gt6_A          218 PAIDNVLYEKSANGDYALIRYPSQREDPAFKIPNGVARIETHAFDSCAYLASVKMPDS-VVSIGTG--AFMNCPALQDIE  294 (394)
T ss_dssp             CBSSSCEEEECTTSCEEEEECCTTCCCSEEECCTTEEEECTTTTTTCSSCCEEECCTT-CCEECTT--TTTTCTTCCEEE
T ss_pred             ccccceeecccccccccccccccccccceEEcCCcceEcccceeeecccccEEecccc-cceecCc--cccccccccccc
Confidence            000000000000000 000000011222222211100 00112677788888888655 3334322  455678888888


Q ss_pred             EecCCCCCCC--cccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccc
Q 038405          732 IRVCPVIRDL--TWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLD  789 (863)
Q Consensus       732 L~~~~~~~~l--~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~  789 (863)
                      +...  ++.+  ..+..+++|+.+.|..+  ++.|..        ..+.++.+|+.+.|-
T Consensus       295 l~~~--i~~I~~~aF~~c~~L~~i~lp~~--v~~I~~--------~aF~~C~~L~~i~ip  342 (394)
T 4gt6_A          295 FSSR--ITELPESVFAGCISLKSIDIPEG--ITQILD--------DAFAGCEQLERIAIP  342 (394)
T ss_dssp             CCTT--CCEECTTTTTTCTTCCEEECCTT--CCEECT--------TTTTTCTTCCEEEEC
T ss_pred             CCCc--ccccCceeecCCCCcCEEEeCCc--ccEehH--------hHhhCCCCCCEEEEC
Confidence            8532  3333  34677888888888543  333321        244556667776663

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.88  E-value=5e-06  Score=77.92  Aligned_cols=86  Identities=12%  Similarity=0.276  Sum_probs=41.4

Q ss_pred             CcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC--cccccC----CCcceEeeccCcchhhhhcccCCccc
Q 038405          700 HLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL--TWIREA----PNLQFLSLVNCQALSEIIESAGSSEV  773 (863)
Q Consensus       700 ~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--~~l~~l----~~L~~L~L~~~~~l~~i~~~~~~~~~  773 (863)
                      .|++|++++|.+++....  .+..+++|+.|+|++|..+++-  ..+..+    ++|++|+|++|..++.--        
T Consensus        62 ~L~~LDLs~~~Itd~GL~--~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~G--------  131 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFD--HMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKG--------  131 (176)
T ss_dssp             CEEEEEEESCCCCGGGGG--GGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHH--------
T ss_pred             eEeEEeCcCCCccHHHHH--HhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHH--------
Confidence            466666666654443221  2234566666666666555442  223332    356666666665443310        


Q ss_pred             cccCccCcccceeccccccccc
Q 038405          774 AESHNYFAYLMVIDLDSLPSLK  795 (863)
Q Consensus       774 ~~~~~~~~~L~~L~L~~~~~L~  795 (863)
                      ......+++|+.|++++|++++
T Consensus       132 l~~L~~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A          132 IIALHHFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             HHHGGGCTTCCEEEEESCTTCC
T ss_pred             HHHHhcCCCCCEEECCCCCCCC
Confidence            0112234555555555555544

>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=97.87  E-value=0.00035  Score=77.16  Aligned_cols=168  Identities=15%  Similarity=0.141  Sum_probs=92.7

Q ss_pred             ccccchhhHHHHHHHhhc------------cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIE------------DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      ++++|.+..++.+.+.+.            ....+-|.|+|++|+|||+||+.+++...   .    .-++.++...   
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~---~----~~~~~v~~~~---  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---N----STFFSISSSD---  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC---S----SEEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC---C----CCEEEEeHHH---
Confidence            568899999998887762            12346789999999999999999998751   1    1233333221   


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHH-hccCcEEEEEccccccc-------------ccccccccCCC---CCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERL-------------DLSKTGVSLSD---CQN  283 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~-------------~~~~~~~~l~~---~~~  283 (863)
                       +....   .+        .. +.....+.+. -..++.+|++|+++...             ....+...+..   ...
T Consensus       204 -l~~~~---~g--------~~-~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  270 (444)
T 2zan_A          204 -LVSKW---LG--------ES-EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  270 (444)
T ss_dssp             --------------------C-CCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCS
T ss_pred             -HHhhh---cc--------hH-HHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCC
Confidence             11000   01        01 1112222222 23577899999997531             01111112211   234


Q ss_pred             CeEEEEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC-hHHHHHH
Q 038405          284 GSKIVFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL-PLALITI  346 (863)
Q Consensus       284 gs~iivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~  346 (863)
                      +..||.||......             +...+.++-..+|...+.......   .......|++.+.|. +-.|..+
T Consensus       271 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l  344 (444)
T 2zan_A          271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL---TEADFQELGRKTDGYSGADISII  344 (444)
T ss_dssp             SCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC---CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHH
Confidence            55666677654322             455566777778877664322111   145667888888885 4344443

>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=97.86  E-value=0.00034  Score=75.85  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=64.2

Q ss_pred             cccceEEEeccCCccccCCCC---CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceee
Q 038405          499 WREDFRLSLWGSSIEYLPETP---CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLN  575 (863)
Q Consensus       499 ~~~~~~l~l~~~~~~~l~~~~---~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~  575 (863)
                      ..+++.+.+. ..++.++...   |.+|+.+.+..+ ++.++...|.++ .|..+.+..+  +..++...-...+|+.+.
T Consensus        45 ~~~i~~v~ip-~~vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~~~~--l~~I~~~aF~~~~L~~i~  119 (379)
T 4h09_A           45 RDRISEVRVN-SGITSIGEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTGMER--VKKFGDYVFQGTDLDDFE  119 (379)
T ss_dssp             GGGCSEEEEC-TTEEEECTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEECTT--CCEECTTTTTTCCCSEEE
T ss_pred             ccCCEEEEeC-CCccChHHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEECCce--eeEeccceeccCCccccc
Confidence            3456666654 3455555543   677777777543 666666667666 4555555433  444444322234677777


Q ss_pred             ccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccC
Q 038405          576 LSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       576 L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~  626 (863)
                      +..+ +..+....-.-.+|+.+.+..+  +..+....+..+.+|..+.+..
T Consensus       120 lp~~-~~~i~~~~F~~~~l~~~~~~~~--v~~i~~~~f~~~~~l~~~~~~~  167 (379)
T 4h09_A          120 FPGA-TTEIGNYIFYNSSVKRIVIPKS--VTTIKDGIGYKAENLEKIEVSS  167 (379)
T ss_dssp             CCTT-CCEECTTTTTTCCCCEEEECTT--CCEECSCTTTTCTTCCEEEECT
T ss_pred             CCCc-cccccccccccceeeeeeccce--eeccccchhccccccccccccc
Confidence            6553 3344333222234555555443  4445444566666666665543

>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=97.85  E-value=0.00016  Score=76.68  Aligned_cols=160  Identities=13%  Similarity=0.078  Sum_probs=95.1

Q ss_pred             hhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhcccccc-------------------CCCCEEEEEEeC---
Q 038405          158 ADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVN-------------------HCFDLVIFVAVS---  214 (863)
Q Consensus       158 r~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~F~~~~wv~~~---  214 (863)
                      .++..+.+...+..+.. ..+.++|+.|+||||+|+.+++......                   .+++. .++...   
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~-~~~~~~~~~   85 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDY-YTLAPEKGK   85 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTE-EEECCCTTC
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEEeccccC
Confidence            35566777777766554 5799999999999999999887652110                   11221 222211   


Q ss_pred             CCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeec
Q 038405          215 KEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTR  292 (863)
Q Consensus       215 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr  292 (863)
                      ....+..+ +++.+.+....                  ..+++-++|+|+++...  ....+...+.....++.+|++|.
T Consensus        86 ~~~~i~~i-r~l~~~~~~~~------------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~  146 (334)
T 1a5t_A           86 NTLGVDAV-REVTEKLNEHA------------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATR  146 (334)
T ss_dssp             SSBCHHHH-HHHHHHTTSCC------------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEES
T ss_pred             CCCCHHHH-HHHHHHHhhcc------------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeC
Confidence            11111111 12222211110                  12567899999998642  23334333433445677777777


Q ss_pred             chhh-h-----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          293 SEEV-C-----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       293 ~~~v-~-----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      +..- .           +.+++.++..+.+.....        -..+.+..+++.++|.|..+..
T Consensus       147 ~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~--------~~~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          147 EPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT--------MSQDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             CGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC--------CCHHHHHHHHHHTTTCHHHHHH
T ss_pred             ChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC--------CCHHHHHHHHHHcCCCHHHHHH
Confidence            6542 2           788999999988877651        1145668899999999976544

>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=97.80  E-value=0.00037  Score=72.73  Aligned_cols=163  Identities=12%  Similarity=0.158  Sum_probs=90.5

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      .+++|.++.++++.+++..             ...+.|.|+|++|+|||+||+.+++..   ...     ++.++    .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~-----~i~v~----~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC-----EEEEE----h
Confidence            4688999988888877632             345679999999999999999999876   222     22222    2


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc----------------cccccccCC--CC
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD----------------LSKTGVSLS--DC  281 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~~~~~l~--~~  281 (863)
                      ..+.....   +.        ........+.......+.+|++|+++....                ...+...+.  ..
T Consensus        83 ~~l~~~~~---g~--------~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           83 PELLTMWF---GE--------SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             HHHHHHHH---TT--------CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhc---Cc--------hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence            23322221   11        111122223333345679999999974210                111111111  12


Q ss_pred             CCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHH
Q 038405          282 QNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLA  342 (863)
Q Consensus       282 ~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  342 (863)
                      ..+..||.||......               +...+.++-.+++...........+.++    ..+++.+.|.|-+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          152 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             TSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCH----HHHHHTCSSCCHH
T ss_pred             CCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchH----HHHHHHcCCCCHH
Confidence            3356677777654321               4556677777777766543322222222    3555667777643

>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=97.78  E-value=2.7e-05  Score=78.86  Aligned_cols=82  Identities=26%  Similarity=0.284  Sum_probs=59.9

Q ss_pred             hcCCCccEEeccCCcCccc---cchhhhcccccceeeccCCCccccchhhhccc--CccEEecCCCCCccccc------h
Q 038405          542 ESMGALKVLDLSYNLDLTQ---LPAEMGALINLRCLNLSNTSIEELPSEIMYLK--NLKILLLDGMRHFHLIP------A  610 (863)
Q Consensus       542 ~~l~~L~~L~Ls~~~~i~~---lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~--~L~~L~l~~~~~l~~lp------~  610 (863)
                      ..+++|+.|+|++| .+..   +|..++.+++|++|+|++|.|+.+ ..+..+.  +|++|+|++|.....+|      .
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~~  244 (267)
T 3rw6_A          167 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            56788888888888 5554   446677888899999998888877 3355555  88999999888554444      2


Q ss_pred             hhhcCCCCCceeecc
Q 038405          611 RVFSSLLSLKVFSLF  625 (863)
Q Consensus       611 ~~i~~L~~L~~L~l~  625 (863)
                      .++..+++|+.|+-.
T Consensus       245 ~il~~~P~L~~LDg~  259 (267)
T 3rw6_A          245 AIRERFPKLLRLDGH  259 (267)
T ss_dssp             HHHHHCTTCCEESSC
T ss_pred             HHHHHCcccCeECCc
Confidence            346778888888653

>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=97.76  E-value=3.6e-05  Score=72.15  Aligned_cols=88  Identities=10%  Similarity=0.119  Sum_probs=57.5

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccc-cchhhhcc----cccceeeccCC-Ccccc-chhhhccc
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ-LPAEMGAL----INLRCLNLSNT-SIEEL-PSEIMYLK  592 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~-lp~~i~~L----~~L~~L~L~~~-~i~~l-P~~i~~L~  592 (863)
                      ..+|+.|++++|.++...-..+..+++|+.|+|++|..++. --..++.+    ++|++|+|++| +|+.- -..+.+++
T Consensus        60 ~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~  139 (176)
T 3e4g_A           60 KYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFR  139 (176)
T ss_dssp             CCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCT
T ss_pred             CceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCC
Confidence            34688888888876654444467788888888888855542 12234443    36888888887 56631 12356677


Q ss_pred             CccEEecCCCCCccc
Q 038405          593 NLKILLLDGMRHFHL  607 (863)
Q Consensus       593 ~L~~L~l~~~~~l~~  607 (863)
                      +|++|++++|..++.
T Consensus       140 ~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          140 NLKYLFLSDLPGVKE  154 (176)
T ss_dssp             TCCEEEEESCTTCCC
T ss_pred             CCCEEECCCCCCCCc
Confidence            888888887765543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.71  E-value=5.4e-05  Score=80.94  Aligned_cols=126  Identities=14%  Similarity=0.108  Sum_probs=57.4

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhh--cCCCccEEeccCCc-------Cccccchhh--hccc
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFE--SMGALKVLDLSYNL-------DLTQLPAEM--GALI  569 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~--~l~~L~~L~Ls~~~-------~i~~lp~~i--~~L~  569 (863)
                      .++.|++.++.-..++....++|+.|.+..|.+..-....+.  .+++|+.|+|+.+.       .+..+...+  +.++
T Consensus       173 ~L~~L~L~g~~~l~l~~~~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p  252 (362)
T 2ra8_A          173 LLNNLKIKGTNNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFP  252 (362)
T ss_dssp             TCCEEEEECCBTCBCCSCBCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCT
T ss_pred             CCcEEEEeCCCCceeccccCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCC
Confidence            455666654421223322256666666665544322211222  45666666664210       011111112  2356


Q ss_pred             ccceeeccCCCccc-cchhh---hcccCccEEecCCCCCccc-----cchhhhcCCCCCceeeccCcc
Q 038405          570 NLRCLNLSNTSIEE-LPSEI---MYLKNLKILLLDGMRHFHL-----IPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       570 ~L~~L~L~~~~i~~-lP~~i---~~L~~L~~L~l~~~~~l~~-----lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      +|++|+|++|.+.. .+..+   ..+++|++|+|+.|. +..     ++.+ +..+++|+.|+++.|.
T Consensus       253 ~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~-L~d~G~~~L~~~-L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          253 NLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV-LTDEGARLLLDH-VDKIKHLKFINMKYNY  318 (362)
T ss_dssp             TCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSC-CBHHHHHHHHTT-HHHHTTCSEEECCSBB
T ss_pred             CcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCC-CChHHHHHHHhh-cccCCcceEEECCCCc
Confidence            66666666665542 11122   235566666666554 222     2222 2345666666666553

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.69  E-value=3.5e-05  Score=74.12  Aligned_cols=109  Identities=14%  Similarity=0.080  Sum_probs=77.7

Q ss_pred             CCCccEEEeecc-cccccc----hhhhhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCccc-----c
Q 038405          520 CPHLQTLLVRFT-VLEIFP----HRFFESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIEE-----L  584 (863)
Q Consensus       520 ~~~Lr~L~l~~~-~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~~-----l  584 (863)
                      +++|++|++++| .+..-.    ...+...+.|++|+|++| .+.     .+...+...+.|++|+|++|.|..     +
T Consensus        35 ~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           35 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             CCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHH
Confidence            577888888888 664321    123556788999999999 554     245556667889999999998874     5


Q ss_pred             chhhhcccCccEEec--CCCCCccc----cchhhhcCCCCCceeeccCcchh
Q 038405          585 PSEIMYLKNLKILLL--DGMRHFHL----IPARVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       585 P~~i~~L~~L~~L~l--~~~~~l~~----lp~~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ...+...++|++|++  ++|..-..    +.. .+...++|++|++++|.+.
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~-~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLGNNVEMEIAN-MLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHHH-HHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHhCCCceEEEecCCCCCCCHHHHHHHHH-HHHhCCCcCEEeccCCCCC
Confidence            677788889999999  77763221    222 2556688999999887653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.67  E-value=3.6e-05  Score=75.27  Aligned_cols=113  Identities=19%  Similarity=0.124  Sum_probs=61.7

Q ss_pred             hHHHHHHHhhccC----CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc
Q 038405          160 SKLDEVWGCIEDQ----SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY  235 (863)
Q Consensus       160 ~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  235 (863)
                      ..++.+.+++...    ..+.+.|+|.+|+||||||+.+++...   .....++|+++      ..+...+......   
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~------~~~~~~~~~~~~~---  103 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYV------PELFRELKHSLQD---  103 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEH------HHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEh------HHHHHHHHHHhcc---
Confidence            3445555665432    126899999999999999999998872   22334566654      3444444432211   


Q ss_pred             cccccChhhHHHHHHHHhccCcEEEEEcccccc--ccccc--ccc-cCCC-CCCCeEEEEeecc
Q 038405          236 IWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSK--TGV-SLSD-CQNGSKIVFTTRS  293 (863)
Q Consensus       236 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--~~~-~l~~-~~~gs~iivTTr~  293 (863)
                          .....    +.+.+... -+|||||++..  ..|..  +.. .+.. ...+.++|+||..
T Consensus       104 ----~~~~~----~~~~~~~~-~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          104 ----QTMNE----KLDYIKKV-PVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             ----CCCHH----HHHHHHHS-SEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             ----chHHH----HHHHhcCC-CEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence                11122    22233333 38999999652  33321  211 1111 1245578888875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.66  E-value=4.8e-05  Score=69.87  Aligned_cols=45  Identities=16%  Similarity=0.292  Sum_probs=35.7

Q ss_pred             cccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|+...+.++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999988743  233457899999999999999999875

>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=97.63  E-value=0.00034  Score=73.98  Aligned_cols=154  Identities=16%  Similarity=0.146  Sum_probs=85.0

Q ss_pred             HHHHHHhhccC--CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccc
Q 038405          162 LDEVWGCIEDQ--SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNM  239 (863)
Q Consensus       162 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  239 (863)
                      ...+..+...+  ....+.|+|++|+||||||+.+++... . ..+ .+++++.      ..+...+...+..       
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~-~-~~~-~~~~i~~------~~~~~~~~~~~~~-------   86 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK-K-RGY-RVIYSSA------DDFAQAMVEHLKK-------   86 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH-H-TTC-CEEEEEH------HHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHH-H-CCC-EEEEEEH------HHHHHHHHHHHHc-------
Confidence            34445555443  346789999999999999999998762 1 111 3345543      2333333333210       


Q ss_pred             cChhhHHHHHHHHhccCcEEEEEcccccccc---c-ccccccCCC-CCCCeEEEEeecchhhh-----------------
Q 038405          240 KGEYDRAVEILISLRRKKFVLLLDDVWERLD---L-SKTGVSLSD-CQNGSKIVFTTRSEEVC-----------------  297 (863)
Q Consensus       240 ~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~-~~~~~~l~~-~~~gs~iivTTr~~~v~-----------------  297 (863)
                      ..    ...+.+.+ .+.-+|++||+.....   + ..+...+.. ...|..||+||....-.                 
T Consensus        87 ~~----~~~~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~  161 (324)
T 1l8q_A           87 GT----INEFRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGIL  161 (324)
T ss_dssp             TC----HHHHHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEE
T ss_pred             Cc----HHHHHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceE
Confidence            01    11122222 2467999999976431   1 222222211 12456788888644221                 


Q ss_pred             --cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          298 --VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       298 --l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                        +.+ +.++..+++...+.......   -.+....|++.+ |..-
T Consensus       162 i~l~~-~~~e~~~il~~~~~~~~~~l---~~~~l~~l~~~~-g~~r  202 (324)
T 1l8q_A          162 VEIEL-DNKTRFKIIKEKLKEFNLEL---RKEVIDYLLENT-KNVR  202 (324)
T ss_dssp             EECCC-CHHHHHHHHHHHHHHTTCCC---CHHHHHHHHHHC-SSHH
T ss_pred             EEeCC-CHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHhC-CCHH
Confidence              666 88888888877764322111   155677788888 6653

>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=97.63  E-value=2.7e-05  Score=74.57  Aligned_cols=117  Identities=16%  Similarity=0.178  Sum_probs=63.2

Q ss_pred             hhhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCc
Q 038405          158 ADSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISD  234 (863)
Q Consensus       158 r~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  234 (863)
                      .+..++.+.+++.+   .....++|+|++|+||||||+.+++......+ + .+++++      ..++...+....... 
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g-~-~~~~~~------~~~~~~~~~~~~~~~-   89 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKG-I-RGYFFD------TKDLIFRLKHLMDEG-   89 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSC-C-CCCEEE------HHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcC-C-eEEEEE------HHHHHHHHHHHhcCc-
Confidence            44555555555543   34578999999999999999999987621111 1 223333      444544444333211 


Q ss_pred             ccccccChhhHHHHHHHHhccCcEEEEEccccc--ccccc--cccccCCC-CCCCeEEEEeecch
Q 038405          235 YIWNMKGEYDRAVEILISLRRKKFVLLLDDVWE--RLDLS--KTGVSLSD-CQNGSKIVFTTRSE  294 (863)
Q Consensus       235 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~--~~~~~--~~~~~l~~-~~~gs~iivTTr~~  294 (863)
                            ....    +.+.+. +.-+|||||++.  ...|.  .+...+.. ...|..||+||...
T Consensus        90 ------~~~~----~~~~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A           90 ------KDTK----FLKTVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             ------CCSH----HHHHHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             ------hHHH----HHHHhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence                  1111    222222 456899999973  22232  11111111 12467888888753

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.51  E-value=0.00063  Score=75.64  Aligned_cols=46  Identities=17%  Similarity=0.353  Sum_probs=40.5

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++|||+++++.+...+......-+.|+|.+|+|||++|+.++...
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999976555667899999999999999999875

>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=97.51  E-value=0.0025  Score=68.91  Aligned_cols=98  Identities=11%  Similarity=0.103  Sum_probs=67.4

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchhhhcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSEIMYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~  598 (863)
                      ..+|+.+.+.. .++.++...|.++.+|+.++|..+  ++.++. .|.++ .|+.+.+.. +++.++...-...+|+.+.
T Consensus        45 ~~~i~~v~ip~-~vt~Ig~~aF~~C~~L~~I~lp~~--v~~Ig~~aF~~c-~l~~i~~~~-~l~~I~~~aF~~~~L~~i~  119 (379)
T 4h09_A           45 RDRISEVRVNS-GITSIGEANFNSCYNMTKVTVAST--VTSIGDGAFADT-KLQSYTGME-RVKKFGDYVFQGTDLDDFE  119 (379)
T ss_dssp             GGGCSEEEECT-TEEEECTTTTTTCTTCCEEEECTT--CCEECTTTTTTC-CCCEEEECT-TCCEECTTTTTTCCCSEEE
T ss_pred             ccCCEEEEeCC-CccChHHHHhhCCCCCCEEEeCCc--ceEechhhhcCC-CCceEECCc-eeeEeccceeccCCccccc
Confidence            56788888864 478888899999999999999765  555554 45555 677777654 4666766544445899999


Q ss_pred             cCCCCCccccchhhhcCCCCCceeecc
Q 038405          599 LDGMRHFHLIPARVFSSLLSLKVFSLF  625 (863)
Q Consensus       599 l~~~~~l~~lp~~~i~~L~~L~~L~l~  625 (863)
                      +..+  +..+...++.+. +|..+.+.
T Consensus       120 lp~~--~~~i~~~~F~~~-~l~~~~~~  143 (379)
T 4h09_A          120 FPGA--TTEIGNYIFYNS-SVKRIVIP  143 (379)
T ss_dssp             CCTT--CCEECTTTTTTC-CCCEEEEC
T ss_pred             CCCc--cccccccccccc-eeeeeecc
Confidence            8765  455655555544 55555544

>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=97.47  E-value=0.00013  Score=74.89  Aligned_cols=46  Identities=22%  Similarity=0.259  Sum_probs=35.5

Q ss_pred             ccccchhhHHHHHHHhhcc------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+++|.++.++.+.+.+..            ...+-+.|+|++|+|||+||+.+++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            5688998887777766531            112347799999999999999999876

>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=97.44  E-value=0.00013  Score=73.93  Aligned_cols=78  Identities=23%  Similarity=0.197  Sum_probs=59.6

Q ss_pred             CCCccEEEeecccccccch--hhhhcCCCccEEeccCCcCccccchhhhccc--ccceeeccCCCccc-cc-------hh
Q 038405          520 CPHLQTLLVRFTVLEIFPH--RFFESMGALKVLDLSYNLDLTQLPAEMGALI--NLRCLNLSNTSIEE-LP-------SE  587 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~--~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~--~L~~L~L~~~~i~~-lP-------~~  587 (863)
                      +++|++|+|++|.+..++.  ..+..+++|++|+|++| .+..+ ..+..+.  +|++|+|++|.+.. +|       ..
T Consensus       169 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          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            5678888888887776553  44678999999999999 77766 3355555  89999999998863 44       24


Q ss_pred             hhcccCccEEec
Q 038405          588 IMYLKNLKILLL  599 (863)
Q Consensus       588 i~~L~~L~~L~l  599 (863)
                      +..+++|+.||-
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            678999999863

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.43  E-value=0.00034  Score=74.51  Aligned_cols=160  Identities=16%  Similarity=0.184  Sum_probs=88.7

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      +++.|.++.+++|.+.+.-             ...+=|.++|++|.|||.||+++++..   ...|   +.+..+.-.+ 
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~s-  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKF---IRVSGAELVQ-  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEE---EEEEGGGGSC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCc---eEEEhHHhhc-
Confidence            4567899988888876621             234558899999999999999999987   3332   3333321110 


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEccccccc----------c------cccccccCC--C
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERL----------D------LSKTGVSLS--D  280 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~----------~------~~~~~~~l~--~  280 (863)
                                   .   +.. ..+.....+.. .-...+++|++|+++...          +      ...+...+.  .
T Consensus       221 -------------k---~vG-ese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          221 -------------K---YIG-EGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             -------------S---STT-HHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             -------------c---ccc-hHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence                         0   001 11222222222 223578999999987421          0      111111111  1


Q ss_pred             CCCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          281 CQNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ...+-.||.||......               +..-+.++-.++|+.+........+.+    ...+++.+.|.-
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            23344566677665543               444566666778877664433222223    456777887754

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.42  E-value=0.0018  Score=65.76  Aligned_cols=46  Identities=22%  Similarity=0.286  Sum_probs=35.1

Q ss_pred             ccccchhhHHHHHHHhh---cc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCI---ED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.+..++++.+.+   ..         ...+-+.|+|++|+||||+|+.+++..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            56889988877766544   21         113458899999999999999999876

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.38  E-value=8.8e-05  Score=67.85  Aligned_cols=45  Identities=16%  Similarity=0.148  Sum_probs=34.4

Q ss_pred             cccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|++..++++.+.+..  ....-|.|+|.+|+|||++|+.+++..
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            578999998888887743  333457799999999999999998765

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.34  E-value=0.00044  Score=74.91  Aligned_cols=160  Identities=18%  Similarity=0.219  Sum_probs=88.3

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      +++.|.++.+++|.+.+.-             ...+=|.++|++|.|||+||+++++..   ...   .+.+..+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~---~~~v~~s~l~s-  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GAN---FIFSPASGIVD-  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGTCC-
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehhhhcc-
Confidence            4567899888888776621             234668899999999999999999987   222   23344332110 


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHH-HhccCcEEEEEccccccc--------c--------cccccccCC--C
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILI-SLRRKKFVLLLDDVWERL--------D--------LSKTGVSLS--D  280 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~--------~--------~~~~~~~l~--~  280 (863)
                                   .   +... .+.....+.. .-...+++|++|+++...        .        +..+...+.  .
T Consensus       254 -------------k---~~Ge-se~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          254 -------------K---YIGE-SARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             -------------S---SSSH-HHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             -------------c---cchH-HHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence                         0   0111 1122222222 224578999999997421        0        111111111  1


Q ss_pred             CCCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          281 CQNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       281 ~~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ...+..||.||......               +..-+.++-.++|+.+........+.+    ...+++.+.|.-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            22345677777765443               444456666677776654322222223    356677787754

>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=97.33  E-value=0.00038  Score=83.79  Aligned_cols=46  Identities=20%  Similarity=0.375  Sum_probs=40.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||++++.++++.+......-+.++|.+|+||||+|+.+++..
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999999999999977666668899999999999999999875

>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=97.33  E-value=0.00094  Score=69.38  Aligned_cols=138  Identities=17%  Similarity=0.106  Sum_probs=80.2

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcccccc-CCCCEEEEEEeCC-CCCHHHHHHHHHHHcCCCc
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVN-HCFDLVIFVAVSK-EGNLEKIQEVIRKKLDISD  234 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~  234 (863)
                      |-++.++.+...+..+..+.+.++|+.|+||||+|+.+++...... .+.+. .++..+. ...+..+ +++.+.+....
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 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHHhhcc
Confidence            4456677788888776678899999999999999999987421011 23333 4444332 2333333 22333332211


Q ss_pred             ccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchhhh----------cccCC
Q 038405          235 YIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEEVC----------VECLS  302 (863)
Q Consensus       235 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~v~----------l~~L~  302 (863)
                                        ..+++-++|+|+++..  .....+...+....+.+.+|++|.+..-.          +.+++
T Consensus        79 ------------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR~~~f~~l~  140 (305)
T 2gno_A           79 ------------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  140 (305)
T ss_dssp             ------------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ------------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHceeEeCCCCC
Confidence                              1245778999999864  23344444443344577877777554311          66677


Q ss_pred             HHHHHHHHhHhh
Q 038405          303 PEAALDLFRYKV  314 (863)
Q Consensus       303 ~~~a~~Lf~~~~  314 (863)
                      +++..+.+....
T Consensus       141 ~~~i~~~L~~~~  152 (305)
T 2gno_A          141 PKEFRDLVKEKI  152 (305)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            777776666554

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.32  E-value=0.00063  Score=72.67  Aligned_cols=46  Identities=28%  Similarity=0.432  Sum_probs=36.7

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++.|.++.+++|.+.+.    .         ...+=|.++|++|.|||.||+++++..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            456689988888877652    1         234668999999999999999999987

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.32  E-value=0.00041  Score=75.13  Aligned_cols=46  Identities=22%  Similarity=0.325  Sum_probs=37.3

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++.|.++.+++|.+.+.    .         ...+=|.++|++|.|||.||+++++..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            456799999988887652    1         234668899999999999999999987

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.30  E-value=0.00062  Score=73.49  Aligned_cols=46  Identities=22%  Similarity=0.377  Sum_probs=37.1

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.++.+++|.+.+.    .         ...+=|.++|++|.|||+||+++++..
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            356789998888887652    1         345678899999999999999999987

>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=97.29  E-value=0.0013  Score=73.14  Aligned_cols=160  Identities=14%  Similarity=0.172  Sum_probs=89.4

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      ..++|.+..++++.+++..             ...+-|.|+|.+|+|||++|+.+++..   ...   .+.++.      
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~---fv~vn~------  271 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLING------  271 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSE---EEEEEH------
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCC---EEEEEc------
Confidence            4578999999999887742             334568999999999999999998875   222   233332      


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc-------------cccccccCC--CCCCC
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD-------------LSKTGVSLS--DCQNG  284 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~~~~~l~--~~~~g  284 (863)
                      .    ++...+.       ..........+.....+++.+|+||+++....             ...+...+.  ....+
T Consensus       272 ~----~l~~~~~-------g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          272 P----EIMSKLA-------GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             H----HHHTSCT-------THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             h----Hhhhhhc-------chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence            1    1111111       11111222233334456778999999953210             111111111  12234


Q ss_pred             eEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCC
Q 038405          285 SKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       285 s~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      ..||.||......               +...+.++-.+++...+.......+..    ..++++.+.|.
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~----l~~la~~t~g~  406 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGH  406 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCC----HHHHHHTCTTC
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhh----HHHHHHHccCC
Confidence            5566666654321               556677888888887764332222222    34566667664

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.27  E-value=0.0014  Score=77.89  Aligned_cols=46  Identities=17%  Similarity=0.353  Sum_probs=40.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++|||+++++++...|......-+.++|.+|+|||++|+.+++..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999977655668899999999999999998875

>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=97.23  E-value=0.0019  Score=68.35  Aligned_cols=46  Identities=20%  Similarity=0.274  Sum_probs=37.1

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.+..++.+...+..     .....+.|+|++|+||||||+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            5678988877777766643     234679999999999999999999876

>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=97.18  E-value=0.0017  Score=71.43  Aligned_cols=161  Identities=16%  Similarity=0.176  Sum_probs=86.2

Q ss_pred             ccccchhhHHHHHHHhhc---cC---------CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIE---DQ---------SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.++.++++.+.+.   ..         -.+-|.|+|++|+||||||+.+++..   ...|   +.++.++-... 
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTTC-
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHHH-
Confidence            468899888777766542   11         12348899999999999999999876   2232   23333322110 


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc----------------ccccccccCC--CCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL----------------DLSKTGVSLS--DCQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~~~~~l~--~~~  282 (863)
                               +       ...........+.....+.+.+|+||+++...                .+..+...+.  ...
T Consensus        89 ---------~-------~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           89 ---------F-------VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             ---------C-------TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ---------H-------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence                     0       00111112222333445678999999996521                0111111111  112


Q ss_pred             CCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          283 NGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       283 ~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      .+..||.||......               +...+.++-.+++...+.......+.+    ...+++.+.|..
T Consensus       153 ~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          153 EGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             GTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh----HHHHHHhcCCCc
Confidence            355677777665432               344455566667766554322211112    344777787766

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.13  E-value=0.0003  Score=67.51  Aligned_cols=103  Identities=12%  Similarity=0.024  Sum_probs=77.7

Q ss_pred             ccceEEEeccC-Cccc-----cCCCC--CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCccc-----cc
Q 038405          500 REDFRLSLWGS-SIEY-----LPETP--CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLTQ-----LP  562 (863)
Q Consensus       500 ~~~~~l~l~~~-~~~~-----l~~~~--~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~~-----lp  562 (863)
                      ..++.+++.+| .+..     +....  .++|++|++++|.+..-.    ...+...+.|++|+|++| .+..     +.
T Consensus        36 ~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g~~~l~  114 (185)
T 1io0_A           36 PDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILALV  114 (185)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHHHH
T ss_pred             CCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHHHHHHH
Confidence            36788899887 6643     22211  689999999999765422    123556789999999999 5553     56


Q ss_pred             hhhhcccccceeec--cCCCccc-----cchhhhcccCccEEecCCCC
Q 038405          563 AEMGALINLRCLNL--SNTSIEE-----LPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       563 ~~i~~L~~L~~L~L--~~~~i~~-----lP~~i~~L~~L~~L~l~~~~  603 (863)
                      ..+.....|++|+|  ++|.|..     +...+...++|++|++++|.
T Consensus       115 ~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          115 EALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence            66778889999999  8898873     56667778999999999986

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.07  E-value=0.0012  Score=71.49  Aligned_cols=46  Identities=28%  Similarity=0.374  Sum_probs=37.2

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.++.+++|.+.+.-             ...+=|.++|++|.|||+||+++++..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4567999988888876621             234568899999999999999999987

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.05  E-value=0.00097  Score=69.94  Aligned_cols=45  Identities=27%  Similarity=0.358  Sum_probs=37.0

Q ss_pred             cccchhhHHHHHHHhhccC---------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIEDQ---------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..++.+...+...         ....+.++|.+|+||||+|+.++...
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            4679999988888877441         13579999999999999999999876

>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=97.01  E-value=0.003  Score=75.17  Aligned_cols=46  Identities=17%  Similarity=0.302  Sum_probs=40.9

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++||+.+++++.+.|......-+.|+|.+|+||||+|+.+++..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999999999999977666778899999999999999998865

>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=96.77  E-value=0.0069  Score=67.08  Aligned_cols=46  Identities=17%  Similarity=0.237  Sum_probs=35.8

Q ss_pred             ccccchhhHHHHHHHhh---ccC--CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCI---EDQ--SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.++.++.+..++   ...  ..+-+.++|++|+|||++|+.+++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            57899998887655544   332  23568899999999999999999876

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.75  E-value=0.0086  Score=61.92  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.+.++|++|+|||+||+.+++..
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999887

>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=96.52  E-value=0.0086  Score=67.67  Aligned_cols=46  Identities=22%  Similarity=0.315  Sum_probs=35.6

Q ss_pred             ccccchhhHHHHHHHhhc------cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE------DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.+|.++..+.+.+.+.      .....++.++|++|+||||||+.++...
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            446788887777765442      1245689999999999999999999876

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.51  E-value=0.0023  Score=58.65  Aligned_cols=26  Identities=31%  Similarity=0.314  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-..++|+|..|+|||||++.++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            55789999999999999999999876

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.51  E-value=0.017  Score=63.93  Aligned_cols=46  Identities=22%  Similarity=0.318  Sum_probs=34.6

Q ss_pred             ccccchhhHHHHHHHhh---ccC---------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCI---EDQ---------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.++.+.++.+..   ...         -.+-|.|+|++|+||||||+.++...
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            56889988777766554   221         11238999999999999999999876

>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=96.50  E-value=0.018  Score=58.03  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=33.2

Q ss_pred             ccccchhhHHHHHHHhhc---c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE---D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.++.+.++.+...   .         .-.+-+.|+|++|+||||||+.++...
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            467888877666655431   1         011228999999999999999999876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.49  E-value=0.0099  Score=60.97  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=33.8

Q ss_pred             ccccchhhHHHHHHHhhc---c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE---D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|.++.++++.+...   .         .-.+-+.|+|++|+||||||+.++...
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            568898877766665442   1         011228999999999999999999876

>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=96.48  E-value=0.0011  Score=68.06  Aligned_cols=69  Identities=13%  Similarity=0.120  Sum_probs=45.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEe--CCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAV--SKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      -+++.|+|++|+||||||.+++... .  .   .++|++.  .+..             ..-     ..+.++....+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~-G--~---~VlyIs~~~eE~v-------------~~~-----~~~le~~l~~i~~  178 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEAL-G--G---KDKYATVRFGEPL-------------SGY-----NTDFNVFVDDIAR  178 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHH-H--T---TSCCEEEEBSCSS-------------TTC-----BCCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhC-C--C---CEEEEEecchhhh-------------hhh-----hcCHHHHHHHHHH
Confidence            3567899999999999999998752 1  1   2346665  2221             100     1344556666777


Q ss_pred             HhccCcEEEEEccccc
Q 038405          252 SLRRKKFVLLLDDVWE  267 (863)
Q Consensus       252 ~l~~k~~LlVlDdv~~  267 (863)
                      .+...+ +||+|++..
T Consensus       179 ~l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          179 AMLQHR-VIVIDSLKN  193 (331)
T ss_dssp             HHHHCS-EEEEECCTT
T ss_pred             HHhhCC-EEEEecccc
Confidence            777666 999999864

>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=96.35  E-value=0.0062  Score=71.13  Aligned_cols=161  Identities=14%  Similarity=0.185  Sum_probs=86.7

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      +++.|.++.+++|.+.+.    .         ...+-|.++|++|+|||+||+++++..   ..+   .+.|+.+     
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~---~~~v~~~-----  272 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----  272 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCE---EEEEEHH-----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCe---EEEEEhH-----
Confidence            346688888877777652    1         234568999999999999999999886   222   2333321     


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--------c-----cccccccCC--CCCCC
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--------D-----LSKTGVSLS--DCQNG  284 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--------~-----~~~~~~~l~--~~~~g  284 (863)
                           ++....       .......+...+....+..+.+|++|+++...        +     ...+...+.  ....+
T Consensus       273 -----~l~sk~-------~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~  340 (806)
T 3cf2_A          273 -----EIMSKL-------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (806)
T ss_dssp             -----HHHSSC-------TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGC
T ss_pred             -----Hhhccc-------chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCC
Confidence                 111110       11112222222333345678999999997521        0     001111111  11223


Q ss_pred             eEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          285 SKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       285 s~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      -.||.||......               +...+.++-.++|...........+.+    ...|++++.|.-
T Consensus       341 V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            3455566544332               444566666777776664433222223    456777888764

>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=96.31  E-value=0.012  Score=58.94  Aligned_cols=94  Identities=7%  Similarity=0.010  Sum_probs=56.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccccc---CCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc----c---ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVN---HCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY----I---WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~---~~~~~~  242 (863)
                      .-.+++|+|.+|+|||||++.++.......   ..-..++|+.....+....+. ++++.++....    .   ....+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            346899999999999999999887531100   123578999887766655443 34455554321    0   011222


Q ss_pred             hh---HHHHHHHHhc-cCcEEEEEccccc
Q 038405          243 YD---RAVEILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~---~~~~l~~~l~-~k~~LlVlDdv~~  267 (863)
                      .+   ....+.+.+. .+.-+||+|.+..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            22   2233444444 3677899999854

>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=96.30  E-value=0.0085  Score=63.18  Aligned_cols=87  Identities=13%  Similarity=0.059  Sum_probs=56.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++.|+|.+|+||||||.+++.... .  .-..++|++....++..     .++.++......   ...+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~-~--~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ-K--MGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH-H--TTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-h--cCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            347999999999999999999987752 1  12357888887777654     445555443211   223445555555


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ...++ .+.-++|+|.+..
T Consensus       132 ~~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHHTSCCSEEEEECTTT
T ss_pred             HHHhhhcCCCeEEehHhhh
Confidence            54443 4556899999854

>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=96.26  E-value=0.008  Score=59.11  Aligned_cols=88  Identities=11%  Similarity=0.097  Sum_probs=52.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh---
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE---  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~---  242 (863)
                      .-.++.|+|.+|+||||||..++. .   .+  ..++|++....++...+.. +.+..+.....       ....+.   
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~---~~--~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-L---SG--KKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQ   91 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-H---HC--SEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-H---cC--CcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHH
Confidence            346899999999999999999987 2   11  4688888777666655543 44433321100       011122   


Q ss_pred             hhHHHHHHHHhccCcEEEEEccccc
Q 038405          243 YDRAVEILISLRRKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~~~~~l~~~l~~k~~LlVlDdv~~  267 (863)
                      .+....++..++.+.-+||+|.+..
T Consensus        92 ~~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           92 RRVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHHhhcCCCEEEEcCcHH
Confidence            1233333333333467899998754

>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=96.23  E-value=0.018  Score=60.38  Aligned_cols=94  Identities=12%  Similarity=0.083  Sum_probs=58.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccccc---CCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVN---HCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  242 (863)
                      .-.++.|+|.+|+||||||.+++.......   ..-..++|++....++..++.+ +++.++.....       ....+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCH
Confidence            346899999999999999999886541110   0124789999888887776653 45666554310       011222


Q ss_pred             h---hHHHHHHHHhc--cCcEEEEEccccc
Q 038405          243 Y---DRAVEILISLR--RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~---~~~~~l~~~l~--~k~~LlVlDdv~~  267 (863)
                      +   +....+...++  .+.-+||+|.+..
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence            2   23344455554  4567889998853

>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=96.14  E-value=0.02  Score=58.45  Aligned_cols=87  Identities=10%  Similarity=0.041  Sum_probs=56.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHHHHH
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEILIS  252 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  252 (863)
                      ++-|+|.+|+||||||.+++.... ....-..++|++.-..++..     -+++++......   ...+.++....+.+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~-~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYM-RQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHH-HHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            689999999999999998877652 11113478999988887764     266777654321   223444441223333


Q ss_pred             h----ccCcEEEEEcccccc
Q 038405          253 L----RRKKFVLLLDDVWER  268 (863)
Q Consensus       253 l----~~k~~LlVlDdv~~~  268 (863)
                      +    .++.-+||+|-|...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            3    346789999998654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.13  E-value=0.0082  Score=59.65  Aligned_cols=47  Identities=26%  Similarity=0.206  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      -.+++|+|.+|+|||||++.++..... .  -..++|+....  ....+...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~-~--~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLR-D--GDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHH-H--TCCEEEEESSS--CHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH-C--CCeEEEEEccc--CHHHHHHH
Confidence            468999999999999999999865521 1  12466665433  34444443

>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=96.06  E-value=0.014  Score=61.81  Aligned_cols=87  Identities=15%  Similarity=0.014  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++.|.|.+|+||||||.+++.... .  .-..++|++....++...     +..++......   +..+.++....+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~-~--~g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ-R--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-H--TTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-H--CCCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHH
Confidence            457899999999999999999887652 1  123688999887776442     45555443211   112334444433


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ .+.-+||+|.+..
T Consensus       134 ~~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhccCCCEEEEcCHHH
Confidence            33332 4556899999854

>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=96.03  E-value=0.025  Score=59.78  Aligned_cols=94  Identities=11%  Similarity=0.056  Sum_probs=57.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccccc---CCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVN---HCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  242 (863)
                      .-.++.|+|.+|+||||||.+++.......   +.-..++|++....++..++.. +++.++.....       ....+.
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            457899999999999999999887631100   0235789999888878776653 44555543210       011122


Q ss_pred             h---hHHHHHHHHhc---cCcEEEEEccccc
Q 038405          243 Y---DRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~---~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      +   +....+...++   .+.-+||+|.+..
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            2   22333444443   4566888898754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.02  E-value=0.022  Score=58.05  Aligned_cols=46  Identities=22%  Similarity=0.156  Sum_probs=33.2

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.++.++++.+.+.    .         .-.+=+.++|++|+||||||+.++...
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            456788888887776541    1         111229999999999999999999875

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.96  E-value=0.0046  Score=64.35  Aligned_cols=41  Identities=22%  Similarity=0.359  Sum_probs=30.4

Q ss_pred             hhhHHHHHHHhhccC---CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          158 ADSKLDEVWGCIEDQ---SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       158 r~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +...++.+.+++...   ....+.|+|.+|+|||+||+.+++..
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            334445555666541   24678999999999999999999876

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.95  E-value=0.0084  Score=71.14  Aligned_cols=46  Identities=20%  Similarity=0.314  Sum_probs=37.3

Q ss_pred             ccccchhhHHHHHHHhhcc---------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED---------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999888887742         112369999999999999999999875

>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=95.90  E-value=0.0055  Score=58.11  Aligned_cols=114  Identities=15%  Similarity=0.061  Sum_probs=59.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC---CCHHHHHHHHHHHcCCCc------ccccccC----
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE---GNLEKIQEVIRKKLDISD------YIWNMKG----  241 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~---~~~~~~~~~i~~~l~~~~------~~~~~~~----  241 (863)
                      ..|-|++-.|.||||+|-...-+.   .++=-.+.++.+.+.   .....+    ++.++..-      ..+...+    
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA---~g~G~rV~~vQF~Kg~~~~gE~~~----l~~L~v~~~~~g~gf~~~~~~~~~~  101 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARA---VGHGKNVGVVQFIKGTWPNGERNL----LEPHGVEFQVMATGFTWETQNREAD  101 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHH---HHTTCCEEEEESSCCSSCCHHHHH----HGGGTCEEEECCTTCCCCGGGHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEEeeCCCCCccHHHH----HHhCCcEEEEcccccccCCCCcHHH
Confidence            456666666799999999888776   222234566655443   222333    33332110      0011111    


Q ss_pred             ---hhhHHHHHHHHhcc-CcEEEEEcccccc-----cccccccccCCCCCCCeEEEEeecchh
Q 038405          242 ---EYDRAVEILISLRR-KKFVLLLDDVWER-----LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       242 ---~~~~~~~l~~~l~~-k~~LlVlDdv~~~-----~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                         ........++.+.+ +-=|||||++-..     ...+++...+........||+|+|...
T Consensus       102 ~~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          102 TAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence               11122334445544 4459999998542     222333333333445678999999854

>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=95.90  E-value=0.0028  Score=62.14  Aligned_cols=114  Identities=11%  Similarity=-0.036  Sum_probs=62.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      .-.++.|+|..|+||||++..+.++..   .+-..++.+....+..   ....++..++............+....+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~---~~g~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLE---YADVKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHH---HTTCCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHH
Confidence            346889999999999999998888762   2222344554333221   2224455555433222222333444444444


Q ss_pred             hccCcE-EEEEcccccc--cccccccccCCCCCCCeEEEEeecchh
Q 038405          253 LRRKKF-VLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       253 l~~k~~-LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                      +.+.++ +||+|.+..-  ...+.+. .+.+  .|-.||+|-+..+
T Consensus        85 ~~~~~~dvViIDEaQ~l~~~~ve~l~-~L~~--~gi~Vil~Gl~~d  127 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQFFDDRICEVAN-ILAE--NGFVVIISGLDKN  127 (223)
T ss_dssp             TSCTTCCEEEECSGGGSCTHHHHHHH-HHHH--TTCEEEEECCSBC
T ss_pred             hhCCCCCEEEEecCccCcHHHHHHHH-HHHh--CCCeEEEEecccc
Confidence            433444 9999999642  2222221 1212  2678888888654

>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=95.86  E-value=0.02  Score=60.83  Aligned_cols=87  Identities=14%  Similarity=0.053  Sum_probs=56.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc---ccccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI---WNMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~~~~l  249 (863)
                      .-+++.|+|.+|+||||||.+++.... .  .-..++|++....++..     .++.++.....   .+..+.++....+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~-~--~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ-K--AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-H--TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH-H--CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            346889999999999999999887652 1  12368999988877654     24455554321   1223445555555


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ ++.-+||+|.+..
T Consensus       145 ~~l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          145 ELLVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCCEEEEeChHH
Confidence            54444 3456899999853

>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=95.77  E-value=0.022  Score=60.26  Aligned_cols=87  Identities=16%  Similarity=0.139  Sum_probs=55.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++.|+|.+|+||||||.+++.... .  .=..++|++....++..     .++.++......   ...+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~-~--~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ-A--AGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-H--TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-h--CCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457899999999999999999887652 1  12468899988777653     245555443211   122344444444


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ .+.-+||+|.+..
T Consensus       132 ~~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEcChHh
Confidence            43333 3566999999864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.67  E-value=0.0089  Score=57.94  Aligned_cols=42  Identities=19%  Similarity=0.311  Sum_probs=33.4

Q ss_pred             chhhHHHHHHHhhcc---CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          157 GADSKLDEVWGCIED---QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|++.++++.+.+..   ....+|+|.|..|+||||+++.+....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356677777777753   445799999999999999999988754

>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=95.63  E-value=0.006  Score=63.95  Aligned_cols=100  Identities=12%  Similarity=0.064  Sum_probs=53.7

Q ss_pred             HHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc-cccccC
Q 038405          164 EVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY-IWNMKG  241 (863)
Q Consensus       164 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-~~~~~~  241 (863)
                      ++++.+.. ..-..++|+|.+|+|||||++.+.+........++ ++++-+++...  + ..++.+.+....- ......
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~--E-v~~~~~~~~~~vV~atadep  238 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPE--E-VTEMQRLVKGEVVASTFDEP  238 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHH--H-HHHHHTTCSSEEEEECTTSC
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChH--H-HHHHHHHhCeEEEEeCCCCC
Confidence            34455533 44568999999999999999998876521122333 44677776532  1 1223333311000 000111


Q ss_pred             hh------hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 EY------DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~------~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ..      ..+..+.+++  +++.+||++||+-.
T Consensus       239 ~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR  272 (422)
T 3ice_A          239 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  272 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchH
Confidence            11      1112233444  47999999999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.56  E-value=0.14  Score=55.66  Aligned_cols=91  Identities=20%  Similarity=0.150  Sum_probs=47.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCcccc-cccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISDYIW-NMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  250 (863)
                      ..++|.++|.+|+||||+|..++.... .... ..++.++.... ......+.......+...... ...+..+......
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~-~~~G-~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l  176 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLR-EKHK-KKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAAL  176 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHH-HTSC-CCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HhcC-CeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHH
Confidence            457999999999999999999887762 2212 23455554432 223333333344444321100 1123444434344


Q ss_pred             HHhccCc-EEEEEccc
Q 038405          251 ISLRRKK-FVLLLDDV  265 (863)
Q Consensus       251 ~~l~~k~-~LlVlDdv  265 (863)
                      +.++.+. =++|+|-.
T Consensus       177 ~~~~~~~~D~VIIDTp  192 (433)
T 2xxa_A          177 KEAKLKFYDVLLVDTA  192 (433)
T ss_dssp             HHHHHTTCSEEEEECC
T ss_pred             HHHHhCCCCEEEEECC
Confidence            4444223 36667764

>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=95.44  E-value=0.013  Score=59.72  Aligned_cols=46  Identities=15%  Similarity=0.233  Sum_probs=34.2

Q ss_pred             ccccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.+..+.++.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            3578999988888876642  233567899999999999999999875

>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=95.42  E-value=0.0095  Score=62.16  Aligned_cols=46  Identities=17%  Similarity=0.263  Sum_probs=37.6

Q ss_pred             ccccchhhHHHHHHHhhcc--------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED--------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+...+..              .....+.|+|.+|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999988877743              234568899999999999999999876

>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=95.37  E-value=0.044  Score=57.45  Aligned_cols=93  Identities=12%  Similarity=0.119  Sum_probs=56.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc-----------cCCC--CEEEEEEeCCCCCHHHHHHHHHHHcCCCccc---
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV-----------NHCF--DLVIFVAVSKEGNLEKIQEVIRKKLDISDYI---  236 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----------~~~F--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---  236 (863)
                      .-.++.|+|.+|+||||||.+++......           .+..  ..++|++....++..++.+ +++.++.....   
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhc
Confidence            35789999999999999999987652100           0101  4789999888887777664 34555543210   


Q ss_pred             ----ccccChhh---HHHHHHHHhc--cCcEEEEEcccc
Q 038405          237 ----WNMKGEYD---RAVEILISLR--RKKFVLLLDDVW  266 (863)
Q Consensus       237 ----~~~~~~~~---~~~~l~~~l~--~k~~LlVlDdv~  266 (863)
                          ....+.++   ....+.+.++  .+.-+||+|.+.
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                01122222   3334444444  345688888874

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.33  E-value=0.012  Score=57.36  Aligned_cols=39  Identities=23%  Similarity=0.267  Sum_probs=30.5

Q ss_pred             hHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          160 SKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       160 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.+++|.+.+..  ....+|+|+|..|+|||||++.+....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345566666543  456799999999999999999998776

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=95.30  E-value=0.0025  Score=60.83  Aligned_cols=110  Identities=12%  Similarity=-0.036  Sum_probs=52.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .++.|+|..|+||||++..++.+.. . ... .++++....+.  ..-...+...++.........+..+    +.+.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~-~-~g~-~v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~~~~~~~----~~~~~~   74 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYK-L-GKK-KVAVFKPKIDS--RYHSTMIVSHSGNGVEAHVIERPEE----MRKYIE   74 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH-H-TTC-EEEEEEEC-------CCCEECC----CEECEEESSGGG----GGGGCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-H-CCC-eEEEEeecccc--ccCcccEEecCCCceeeEEECCHHH----HHHHhc
Confidence            5788999999999999977766541 1 122 23444332110  0000011111121111001112121    222333


Q ss_pred             cCcEEEEEcccccc-cccccccccCCCCCCCeEEEEeecchh
Q 038405          255 RKKFVLLLDDVWER-LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       255 ~k~~LlVlDdv~~~-~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                      ++.-+|++|.+... .+|.+....+.+.  |..|++|.+..+
T Consensus        75 ~~~dvviIDE~Q~~~~~~~~~l~~l~~~--~~~Vi~~Gl~~~  114 (184)
T 2orw_A           75 EDTRGVFIDEVQFFNPSLFEVVKDLLDR--GIDVFCAGLDLT  114 (184)
T ss_dssp             TTEEEEEECCGGGSCTTHHHHHHHHHHT--TCEEEEEEESBC
T ss_pred             CCCCEEEEECcccCCHHHHHHHHHHHHC--CCCEEEEeeccc
Confidence            45569999999764 3444433322222  678998887543

>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=95.24  E-value=0.061  Score=58.20  Aligned_cols=101  Identities=18%  Similarity=0.269  Sum_probs=62.2

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCC------ccc
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDIS------DYI  236 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~------~~~  236 (863)
                      +++.|.. ..-.-++|+|.+|+|||+|+..+.+...  +.+-+.++++-+++... +.++.+++.+.=...      ...
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtv  220 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  220 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEE
Confidence            4555533 3346789999999999999999988752  33456788888887643 556667776542221      100


Q ss_pred             --ccccCh--------hhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          237 --WNMKGE--------YDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       237 --~~~~~~--------~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                        ....+.        ...+..+.++++   ++.+||++||+-.
T Consensus       221 vV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR  264 (482)
T 2ck3_D          221 LVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  264 (482)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence              001111        112234455554   6899999999853

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.19  E-value=0.021  Score=50.67  Aligned_cols=52  Identities=17%  Similarity=0.203  Sum_probs=35.3

Q ss_pred             EEEeccCCcc--ccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCC
Q 038405          504 RLSLWGSSIE--YLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYN  555 (863)
Q Consensus       504 ~l~l~~~~~~--~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~  555 (863)
                      ++...++.++  .+|....++|+.|+|++|.+..++...|..+++|++|+|++|
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             EEEeCCCCCccccCCCCCCcCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            4555556665  666555666777777777777777777777777777777766

>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=95.08  E-value=0.086  Score=56.60  Aligned_cols=94  Identities=9%  Similarity=0.021  Sum_probs=54.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccccCh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNMKGE  242 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  242 (863)
                      .-.++.|+|.+|+|||||+..++-....   ....-..++|++....++...+. .+++.++.....       ....+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCCChHhHhhcEEEeccCCh
Confidence            3478999999999999999976532201   01133578999887776665543 366666653210       011122


Q ss_pred             hh---HHHHHHHHhc-cCcEEEEEccccc
Q 038405          243 YD---RAVEILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       243 ~~---~~~~l~~~l~-~k~~LlVlDdv~~  267 (863)
                      ..   ....+.+.+. .+.-+||+|.+-.
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence            22   2223333333 3567888998754

>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=95.06  E-value=0.062  Score=55.30  Aligned_cols=86  Identities=15%  Similarity=0.080  Sum_probs=46.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-CCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-EGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILI  251 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  251 (863)
                      ...+|+|+|.+|+||||++..++.......+  ..+.++.... .....+.+....+..+.+..  ...+.......+. 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G--~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~~~~~l~~al~-  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH--KKIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC--CCEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC--CEEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            3579999999999999999998876621112  2345555432 12233334444444444321  1122333333333 


Q ss_pred             HhccCcEEEEEcc
Q 038405          252 SLRRKKFVLLLDD  264 (863)
Q Consensus       252 ~l~~k~~LlVlDd  264 (863)
                      .+ .+.=++|+|-
T Consensus       179 ~~-~~~dlvIiDT  190 (296)
T 2px0_A          179 LF-SEYDHVFVDT  190 (296)
T ss_dssp             HG-GGSSEEEEEC
T ss_pred             Hh-cCCCEEEEeC
Confidence            23 3445777883

>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=94.99  E-value=0.018  Score=69.24  Aligned_cols=45  Identities=27%  Similarity=0.358  Sum_probs=36.6

Q ss_pred             cccchhhHHHHHHHhhccC---------CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIEDQ---------SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..++.+...+...         ....+.|+|..|+|||++|+.+++..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888777431         23578999999999999999998875

>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=94.96  E-value=0.086  Score=51.96  Aligned_cols=58  Identities=17%  Similarity=0.145  Sum_probs=36.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc--ccC-CCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD--VNH-CFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .-.+++|+|..|+|||||++.++.....  ... .-..++|+.....+....+ ..+.+..+
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i-~~~~~~~~   84 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRG   84 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHH-HHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHH-HHHHHHcC
Confidence            3478999999999999999999764311  011 2346788876655444332 33444443

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=94.96  E-value=0.021  Score=59.30  Aligned_cols=46  Identities=17%  Similarity=0.246  Sum_probs=37.2

Q ss_pred             ccccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|+...+.++.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            3578999999998887744  334557799999999999999999865

>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=94.90  E-value=0.012  Score=55.64  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999876

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.87  E-value=0.026  Score=50.04  Aligned_cols=52  Identities=23%  Similarity=0.346  Sum_probs=25.0

Q ss_pred             EEeccCCcCcc--ccchhhhcccccceeeccCCCccccchh-hhcccCccEEecCCCC
Q 038405          549 VLDLSYNLDLT--QLPAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMR  603 (863)
Q Consensus       549 ~L~Ls~~~~i~--~lp~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~  603 (863)
                      +++.++. .++  .+|..+.  .+|++|+|++|.|+.+|.. +..+++|++|+|.+|.
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 LVDCGRR-GLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSS-CCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCC-CCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            4444444 444  4553322  2455555555555555443 3445555555555543

>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=94.83  E-value=0.013  Score=55.03  Aligned_cols=24  Identities=25%  Similarity=0.092  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998875

>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=94.83  E-value=0.14  Score=54.13  Aligned_cols=154  Identities=9%  Similarity=-0.060  Sum_probs=90.4

Q ss_pred             HHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhh
Q 038405          165 VWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYD  244 (863)
Q Consensus       165 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~  244 (863)
                      +.+.+...-.++..++|..|.||++.|..+.....  ...|+....+.+....++.++...+..                
T Consensus         9 l~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~----------------   70 (343)
T 1jr3_D            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIFSLCQA----------------   70 (343)
T ss_dssp             HHHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHHHHHHH----------------
T ss_pred             HHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHHHHhcC----------------
Confidence            33444434457899999999999999999887652  223443222333333344333322211                


Q ss_pred             HHHHHHHHhccCcEEEEEccccc---ccccccccccCCCCCCCeEEEEeecch-------hhh-----------cccCCH
Q 038405          245 RAVEILISLRRKKFVLLLDDVWE---RLDLSKTGVSLSDCQNGSKIVFTTRSE-------EVC-----------VECLSP  303 (863)
Q Consensus       245 ~~~~l~~~l~~k~~LlVlDdv~~---~~~~~~~~~~l~~~~~gs~iivTTr~~-------~v~-----------l~~L~~  303 (863)
                            .-+-+++-++|+|++..   ...+..+...+.....++.+|++|...       .+.           ..+++.
T Consensus        71 ------~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~  144 (343)
T 1jr3_D           71 ------MSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQ  144 (343)
T ss_dssp             ------HHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCT
T ss_pred             ------cCCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCH
Confidence                  11345677888999865   234455544444444577777766431       111           567788


Q ss_pred             HHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHH
Q 038405          304 EAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALIT  345 (863)
Q Consensus       304 ~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  345 (863)
                      ++........+.......   ..+.+..+++.++|.+.++..
T Consensus       145 ~~l~~~l~~~~~~~g~~i---~~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          145 AQLPRWVAARAKQLNLEL---DDAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             THHHHHHHHHHHHTTCEE---CHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhchHHHHHHH
Confidence            887777766653222111   156788888999998876664

>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=94.81  E-value=0.013  Score=55.19  Aligned_cols=20  Identities=35%  Similarity=0.408  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHhhhh
Q 038405          175 QTIGLYGMGGVGKITLLKKP  194 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v  194 (863)
                      .+|+|.|++|+||||+|+.+
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

>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=94.79  E-value=0.062  Score=56.79  Aligned_cols=95  Identities=14%  Similarity=0.121  Sum_probs=54.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccc--cccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcCCCccc-------ccc--
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFL--DVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLDISDYI-------WNM--  239 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~--  239 (863)
                      ..-.++.|+|..|+|||||+..++....  ...+.. ..++|++....+...++ ..+++..+.....       ...  
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCC
Confidence            3457999999999999999999886541  001111 34589987666544443 3344444432110       001  


Q ss_pred             -cChhhHHHHHHHHhc------cCcEEEEEccccc
Q 038405          240 -KGEYDRAVEILISLR------RKKFVLLLDDVWE  267 (863)
Q Consensus       240 -~~~~~~~~~l~~~l~------~k~~LlVlDdv~~  267 (863)
                       ....+....+...++      .+.-+||+|.+-.
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta  242 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  242 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSST
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchH
Confidence             111223334444443      3677899998754

>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=94.75  E-value=0.083  Score=54.34  Aligned_cols=89  Identities=17%  Similarity=0.076  Sum_probs=49.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc-cccChhhHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW-NMKGEYDRAVEILI  251 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  251 (863)
                      ..+|+++|.+|+||||++..++.... .  .-..+.++...... ...+.+....+..+.+.... ...+..+......+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~-~--~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK-K--KGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH-H--TTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-H--CCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            57899999999999999999887762 1  11245555543222 22233344455554432110 12344444444445


Q ss_pred             HhccCcE-EEEEccc
Q 038405          252 SLRRKKF-VLLLDDV  265 (863)
Q Consensus       252 ~l~~k~~-LlVlDdv  265 (863)
                      .++.++| ++|+|-.
T Consensus       175 ~~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            5542333 6777764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.63  E-value=0.016  Score=55.97  Aligned_cols=26  Identities=38%  Similarity=0.301  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|+|+.|+||||+|+.++...
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999999775

>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=94.57  E-value=0.018  Score=55.15  Aligned_cols=26  Identities=27%  Similarity=0.229  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+|+|+|+.|+|||||++.+....
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998753

>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=94.57  E-value=0.055  Score=58.71  Aligned_cols=91  Identities=16%  Similarity=0.241  Sum_probs=51.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcc----cccccChhh-----
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDY----IWNMKGEYD-----  244 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~----~~~~~~~~~-----  244 (863)
                      ..++|+|.+|+|||||++.+.....  ...-+.++++-+++..+ ..++..++.+.-.....    ......+..     
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~--~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIA--QEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHH--HHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhh--hccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            4689999999999999999987752  12224556777776643 44555545432100000    000111111     


Q ss_pred             -HHHHHHHHh---ccCcEEEEEccccc
Q 038405          245 -RAVEILISL---RRKKFVLLLDDVWE  267 (863)
Q Consensus       245 -~~~~l~~~l---~~k~~LlVlDdv~~  267 (863)
                       ....+.+++   +++++||++||+-.
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence             112344444   47899999999853

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.56  E-value=0.025  Score=55.76  Aligned_cols=40  Identities=18%  Similarity=0.238  Sum_probs=31.0

Q ss_pred             hhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          159 DSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       159 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++..+.+...+......+|.|+|.+|+|||||+..+....
T Consensus        23 ~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           23 KRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3344555555555677899999999999999999988764

>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=94.56  E-value=0.095  Score=56.57  Aligned_cols=88  Identities=15%  Similarity=0.068  Sum_probs=48.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHH--HHHHHHHcCCCcccc-cccChhhHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKI--QEVIRKKLDISDYIW-NMKGEYDRAVEIL  250 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~--~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  250 (863)
                      ..+|+|+|.+|+||||++..++....   ..-..+..+.. +.+.....  +....+..+.+.... ...++.+.+....
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~---~~g~~Vllvd~-D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l  173 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEeec-cccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHH
Confidence            47899999999999999999988762   22223444544 34443322  334445555432110 1123344434344


Q ss_pred             HHhccCcE-EEEEccc
Q 038405          251 ISLRRKKF-VLLLDDV  265 (863)
Q Consensus       251 ~~l~~k~~-LlVlDdv  265 (863)
                      +.++.+.| ++|+|-.
T Consensus       174 ~~~~~~~~DvVIIDTa  189 (425)
T 2ffh_A          174 EKARLEARDLILVDTA  189 (425)
T ss_dssp             HHHHHTTCSEEEEECC
T ss_pred             HHHHHCCCCEEEEcCC
Confidence            44433334 6677743

>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=94.54  E-value=0.16  Score=54.99  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.++|.+|+||||++..++...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            35799999999999999999988776

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.49  E-value=0.018  Score=54.65  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -++++|+|+.|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998754

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.44  E-value=0.034  Score=58.05  Aligned_cols=43  Identities=23%  Similarity=0.288  Sum_probs=32.4

Q ss_pred             cchhhHHHHHHHhhc----cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          156 VGADSKLDEVWGCIE----DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       156 vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |+.+...+++++.+.    .+....|.|+|+.|+||||+++.++...
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            445556666666653    3556679999999999999999888765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.44  E-value=0.015  Score=54.60  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|+|+.|+||||+++.++...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.41  E-value=0.019  Score=54.24  Aligned_cols=22  Identities=27%  Similarity=0.211  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhh
Q 038405          175 QTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      .+|.|.|++|+||||+|+.+..
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            4799999999999999999987

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.41  E-value=0.021  Score=60.20  Aligned_cols=44  Identities=18%  Similarity=0.179  Sum_probs=37.1

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|+++.++.+...+...  .-+.++|.+|+|||+||+.+++..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            35789999999888887653  358899999999999999998876

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.37  E-value=0.019  Score=54.62  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.|.|+|+.|+||||+|+.++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998775

>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=94.32  E-value=0.024  Score=54.83  Aligned_cols=27  Identities=33%  Similarity=0.345  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|+|++|+||||+|+.+....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998876

>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=94.30  E-value=0.08  Score=57.51  Aligned_cols=100  Identities=17%  Similarity=0.257  Sum_probs=62.4

Q ss_pred             HHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCC-------ccc
Q 038405          166 WGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDIS-------DYI  236 (863)
Q Consensus       166 ~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~-------~~~  236 (863)
                      ++.|.. ..-.-++|+|..|+|||+|+..+.+...  +.+-+.++++-+++... ..++.+++.+.=...       ...
T Consensus       156 ID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtv  233 (498)
T 1fx0_B          156 VNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             HHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT--TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             eeeecccccCCeEEeecCCCCCchHHHHHHHHHHH--hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            444432 3345689999999999999999988752  34457888988887754 566677776542221       000


Q ss_pred             --ccccC--------hhhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          237 --WNMKG--------EYDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       237 --~~~~~--------~~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                        ....+        ....+..+.++++   ++.+||++||+-.
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence              00111        1122334556664   5899999999853

>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=94.29  E-value=0.093  Score=54.13  Aligned_cols=89  Identities=17%  Similarity=0.133  Sum_probs=48.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH--HHHHHHHHcCCCcccc-cccChhhH-HHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK--IQEVIRKKLDISDYIW-NMKGEYDR-AVE  248 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~--~~~~i~~~l~~~~~~~-~~~~~~~~-~~~  248 (863)
                      ...+|+|+|.+|+||||++..++.... ..  -..+.++.. +.+....  -+...++..+.+.... ...+.... ...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~-~~--g~kV~lv~~-D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~a  178 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV-DE--GKSVVLAAA-DTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-HT--TCCEEEEEE-CTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH-hc--CCEEEEEcc-ccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            357999999999999999999987762 21  123445543 3333322  2234455555432110 11122222 123


Q ss_pred             HHHHhccCcEEEEEccc
Q 038405          249 ILISLRRKKFVLLLDDV  265 (863)
Q Consensus       249 l~~~l~~k~~LlVlDdv  265 (863)
                      +...+....-++|+|-.
T Consensus       179 l~~a~~~~~dvvIiDtp  195 (306)
T 1vma_A          179 VAHALARNKDVVIIDTA  195 (306)
T ss_dssp             HHHHHHTTCSEEEEEEC
T ss_pred             HHHHHhcCCCEEEEECC
Confidence            44444445557888865

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.29  E-value=0.022  Score=55.07  Aligned_cols=27  Identities=19%  Similarity=0.380  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|+|+.|+||||+++.+....
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            345789999999999999999998764

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.28  E-value=0.079  Score=52.86  Aligned_cols=47  Identities=19%  Similarity=0.159  Sum_probs=32.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      -.++.|.|.+|+||||||.+++.....   .-..++|++....  ..++.+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~~--~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEEH--PVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSSC--HHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccCC--HHHHHHH
Confidence            468999999999999999888765411   1235778775543  3444433

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.23  E-value=0.025  Score=55.60  Aligned_cols=42  Identities=12%  Similarity=0.278  Sum_probs=32.7

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++..+++...+.....++|+|+|.+|+|||||+..+....
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           13 ENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555566666655678899999999999999999988765

>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=94.19  E-value=0.068  Score=62.45  Aligned_cols=46  Identities=24%  Similarity=0.296  Sum_probs=35.5

Q ss_pred             ccccchhhHHHHHHHhhcc-------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++.|.++.++++.+.+.-             ...+-|.++|++|.|||.+|+++++..
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh
Confidence            4566888888888776521             123447899999999999999999986

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.13  E-value=0.018  Score=55.69  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|+.|+||||+|+.+....
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            3589999999999999999998775

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=94.13  E-value=0.037  Score=61.31  Aligned_cols=43  Identities=12%  Similarity=0.103  Sum_probs=36.6

Q ss_pred             cccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|++..++.+...+..+  .-|.|+|.+|+|||+||+.+++..
T Consensus        23 ~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            4789999998888777554  368899999999999999999876

>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=94.11  E-value=0.21  Score=52.04  Aligned_cols=58  Identities=22%  Similarity=0.229  Sum_probs=35.6

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-CCCHHHHHHHHHHHcCC
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-EGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~  232 (863)
                      ....+++|+|+.|+||||+++.++.... . .. ..+.++...- .....+-+....+.++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~-~-~~-g~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLK-N-HG-FSVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-h-cC-CEEEEEeecccccchHHHHHHHHHHcCc
Confidence            3467999999999999999999987762 1 22 2344443321 12233344455556654

>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=94.05  E-value=0.039  Score=56.57  Aligned_cols=27  Identities=22%  Similarity=0.116  Sum_probs=23.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|+|..|+||||||+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999988766

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.04  E-value=0.025  Score=52.86  Aligned_cols=26  Identities=27%  Similarity=0.322  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|.|+.|+||||+|+.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998875

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.04  E-value=0.15  Score=53.12  Aligned_cols=52  Identities=12%  Similarity=0.076  Sum_probs=37.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      .-.++.|.|.+|+||||+|..++.... ..+  ..++|++.-  .+..++...+...
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMS-DND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHH-TTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-HcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            346899999999999999999887652 222  578887755  4566666666554

>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=94.03  E-value=0.026  Score=53.09  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|+|+.|+||||+++.+....
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            4689999999999999999998754

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=93.99  E-value=0.029  Score=53.40  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|.|++|+||||+++.++...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.99  E-value=0.023  Score=54.36  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.97  E-value=0.026  Score=52.89  Aligned_cols=24  Identities=33%  Similarity=0.347  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      .-.+++|+|..|+|||||++.++.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHcc
Confidence            346899999999999999997543

>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=93.94  E-value=0.025  Score=54.08  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999876

>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=93.93  E-value=0.039  Score=58.96  Aligned_cols=45  Identities=18%  Similarity=0.181  Sum_probs=36.1

Q ss_pred             cccchhhHHHHHHHhhc-------------c--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE-------------D--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..++.+...+.             .  .....|.++|++|+|||++|+.+++..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            36899988888887772             1  134568999999999999999999876

>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=93.92  E-value=0.022  Score=53.90  Aligned_cols=25  Identities=44%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.|+|++|+||||+|+.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998765

>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=93.91  E-value=0.03  Score=54.42  Aligned_cols=26  Identities=31%  Similarity=0.185  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998765

>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=93.91  E-value=0.028  Score=58.34  Aligned_cols=41  Identities=22%  Similarity=0.403  Sum_probs=28.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      ++.+||+|.|-|||||||.|..++.-.. ..+  ..+.-|....
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA-~~G--kkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS-ILG--KRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH-HCC--CeEEEEecCC
Confidence            4679999999999999998887776552 111  2356666553

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.87  E-value=0.031  Score=54.13  Aligned_cols=25  Identities=16%  Similarity=0.251  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.+++|+|+.|+|||||++.+....
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            3689999999999999999988754

>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=93.86  E-value=0.029  Score=53.54  Aligned_cols=23  Identities=30%  Similarity=0.332  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .+++|+|+.|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=93.85  E-value=0.026  Score=54.74  Aligned_cols=26  Identities=38%  Similarity=0.484  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.|+|++|+||||+++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34689999999999999999998765

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.85  E-value=0.027  Score=56.63  Aligned_cols=24  Identities=17%  Similarity=0.116  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|+|+.|+||||||+.++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998765

>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=93.80  E-value=0.031  Score=53.49  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998765

>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=93.80  E-value=0.032  Score=53.01  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ...|+|+|+.|+||||+|+.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.75  E-value=0.028  Score=54.38  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=21.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.74  E-value=0.025  Score=53.29  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|.|++|+||||+|+.++...
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            358999999999999999998876

>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=93.73  E-value=0.25  Score=53.40  Aligned_cols=26  Identities=31%  Similarity=0.252  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.++|.+|+||||++..++...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999988776

>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=93.72  E-value=0.034  Score=53.99  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|.+|+||||+|+.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999987654

>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=93.71  E-value=0.026  Score=60.01  Aligned_cols=46  Identities=17%  Similarity=0.172  Sum_probs=34.3

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.+..++.+..........-|.|+|.+|+|||++|+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            4588998866655444433233348899999999999999999865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.70  E-value=0.035  Score=53.67  Aligned_cols=26  Identities=27%  Similarity=0.236  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|.|+.|+||||+|+.+....
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            45789999999999999999998765

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.69  E-value=0.032  Score=54.31  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|..|+|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998765

>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=93.68  E-value=0.032  Score=52.61  Aligned_cols=23  Identities=43%  Similarity=0.554  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|+|..|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999888665

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=93.68  E-value=0.035  Score=53.80  Aligned_cols=25  Identities=36%  Similarity=0.254  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|+|+.|+||||+++.+....
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            4689999999999999999988764

>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=93.63  E-value=0.03  Score=54.17  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhh
Q 038405          175 QTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999876

>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=93.61  E-value=0.036  Score=51.46  Aligned_cols=26  Identities=23%  Similarity=0.172  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++++|+|..|+|||||+..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999998876

>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=93.61  E-value=0.051  Score=58.39  Aligned_cols=45  Identities=18%  Similarity=0.220  Sum_probs=34.7

Q ss_pred             cccchhhHHHHHHHhhc------------------------------cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE------------------------------DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.+..++.+...+.                              ......+.++|++|+|||++|+.+++..
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            46788888887776662                              0123468899999999999999999876

>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=93.60  E-value=0.025  Score=53.71  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999998865

>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=93.58  E-value=0.03  Score=55.22  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998765

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=93.55  E-value=0.033  Score=53.40  Aligned_cols=26  Identities=31%  Similarity=0.258  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998765

>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=93.55  E-value=0.037  Score=53.41  Aligned_cols=25  Identities=28%  Similarity=0.239  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ...+|+|+|+.|+||||+|+.+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4578999999999999999998764

>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=93.54  E-value=0.035  Score=53.80  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhh
Q 038405          175 QTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      .+|+|+|+.|+||||+++.+..
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

>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=93.48  E-value=0.03  Score=53.05  Aligned_cols=24  Identities=42%  Similarity=0.555  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|.|+|++|+|||||++.+..+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999988765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=93.46  E-value=0.036  Score=53.07  Aligned_cols=24  Identities=25%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998765

>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=93.42  E-value=0.039  Score=55.49  Aligned_cols=27  Identities=22%  Similarity=0.190  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|.|+.|+||||+|+.+....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999998764

>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=93.41  E-value=0.031  Score=52.43  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.41  E-value=0.036  Score=52.69  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|+|.|+.|+||||+|+.+....
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998765

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=93.40  E-value=0.048  Score=57.63  Aligned_cols=110  Identities=12%  Similarity=0.090  Sum_probs=59.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILIS  252 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  252 (863)
                      ...+++|+|+.|+||||+.+.+..... .. .-..++.+.  ++....  ..   .....-...............+...
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~-~~-~~~~i~t~e--d~~e~~--~~---~~~~~v~q~~~~~~~~~~~~~La~a  192 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLN-NT-KYHHILTIE--DPIEFV--HE---SKKCLVNQREVHRDTLGFSEALRSA  192 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHH-HH-CCCEEEEEE--SSCCSC--CC---CSSSEEEEEEBTTTBSCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccc-CC-CCcEEEEcc--CcHHhh--hh---ccccceeeeeeccccCCHHHHHHHH
Confidence            445999999999999999999876551 11 011222222  221100  00   0000000000111223445578888


Q ss_pred             hccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecch
Q 038405          253 LRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSE  294 (863)
Q Consensus       253 l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~  294 (863)
                      |...+=+|++|.+-+...+..+....   ..|.-||+||-..
T Consensus       193 L~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~  231 (356)
T 3jvv_A          193 LREDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTT  231 (356)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCS
T ss_pred             hhhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccC
Confidence            88889999999998665544432221   2355688888654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.39  E-value=0.031  Score=53.84  Aligned_cols=25  Identities=40%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3579999999999999999987654

>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=93.38  E-value=0.039  Score=55.29  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|+|+.|+|||||++.++...
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999655

>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=93.36  E-value=0.04  Score=52.66  Aligned_cols=26  Identities=35%  Similarity=0.482  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|+.|+||||+|+.+....
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

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.32  E-value=0.036  Score=53.33  Aligned_cols=24  Identities=33%  Similarity=0.317  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|.|+.|+||||+|+.+....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998875

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.32  E-value=0.053  Score=51.58  Aligned_cols=37  Identities=11%  Similarity=0.076  Sum_probs=27.8

Q ss_pred             HHHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          162 LDEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       162 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +..+..++.. +....+.|+|++|+||||+|..+++..
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            4455555543 233479999999999999999998876

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.28  E-value=0.14  Score=65.45  Aligned_cols=87  Identities=15%  Similarity=0.032  Sum_probs=57.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVE  248 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~  248 (863)
                      ..-++|-|+|++|+|||+||.++....   ...=..++|+++...++...     ++.++......   .....++....
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea---~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~ 1496 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEI 1496 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHH---HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHH
Confidence            345789999999999999999998775   22234678888888877666     44555321111   12233444444


Q ss_pred             HHHHhc-cCcEEEEEcccc
Q 038405          249 ILISLR-RKKFVLLLDDVW  266 (863)
Q Consensus       249 l~~~l~-~k~~LlVlDdv~  266 (863)
                      +....+ .+.-+||+|.+.
T Consensus      1497 ~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1497 CDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHHTCCSEEEESCGG
T ss_pred             HHHHHhcCCCCEEEEcChh
Confidence            444443 467799999995

>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=93.28  E-value=0.19  Score=51.70  Aligned_cols=88  Identities=14%  Similarity=0.061  Sum_probs=47.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH--HHHHHHHHcCCCcccc-cccChhhHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK--IQEVIRKKLDISDYIW-NMKGEYDRAVEIL  250 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~--~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  250 (863)
                      ..+++|+|.+|+||||++..++.... ..  -..+.++... ......  .+..+.+..+...... ...++.++.....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~-~~--~~~v~l~~~d-~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l  173 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK-GK--GRRPLLVAAD-TQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHH-HT--TCCEEEEECC-SSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-Hc--CCeEEEecCC-cccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHH
Confidence            47899999999999999999987762 11  1234455433 222222  1233444444432110 1123444433333


Q ss_pred             HHh-ccCcEEEEEccc
Q 038405          251 ISL-RRKKFVLLLDDV  265 (863)
Q Consensus       251 ~~l-~~k~~LlVlDdv  265 (863)
                      ..+ ....=++|+|-.
T Consensus       174 ~~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          174 EKARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHHTCCEEEEECC
T ss_pred             HHHHhCCCCEEEEeCC
Confidence            333 244457788865

>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=93.26  E-value=0.041  Score=52.51  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999988764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.21  E-value=0.061  Score=55.18  Aligned_cols=26  Identities=27%  Similarity=0.193  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998764

>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=93.19  E-value=0.044  Score=55.41  Aligned_cols=25  Identities=36%  Similarity=0.360  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998864

>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=93.17  E-value=0.099  Score=56.20  Aligned_cols=90  Identities=14%  Similarity=0.118  Sum_probs=54.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCC----EEEEEEeCCCC-CHHHHHHHHHHHcCCCccc--c--cccChh--
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD----LVIFVAVSKEG-NLEKIQEVIRKKLDISDYI--W--NMKGEY--  243 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~----~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~--~--~~~~~~--  243 (863)
                      .-++|+|..|+|||+|+.++++..   ..+-+    .++++-+++.. .+.++.+++.+.=......  .  ......  
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~---~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r  228 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQA---TVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIER  228 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHC---BCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHH---HhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHH
Confidence            447899999999999999998876   22223    67777777654 3556666654431111000  0  011111  


Q ss_pred             ----hHHHHHHHHhc---cCcEEEEEccccc
Q 038405          244 ----DRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       244 ----~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                          ..+..+.++++   ++.+||++||+-.
T Consensus       229 ~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr  259 (465)
T 3vr4_D          229 IATPRMALTAAEYLAYEKGMHVLVIMTDMTN  259 (465)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence                12234566664   6899999999853

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.17  E-value=0.4  Score=52.91  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|+|+|.+|+||||++..++...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999998766

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.16  E-value=0.041  Score=53.55  Aligned_cols=24  Identities=21%  Similarity=0.262  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999876

>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=93.15  E-value=0.047  Score=56.67  Aligned_cols=27  Identities=26%  Similarity=0.225  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|+|..|+|||||++.+..-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            345799999999999999999988765

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.15  E-value=0.042  Score=51.15  Aligned_cols=23  Identities=26%  Similarity=0.172  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998865

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=93.15  E-value=0.046  Score=53.21  Aligned_cols=27  Identities=33%  Similarity=0.305  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+||.|.|++|+||||.|+.++.++
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999999876

>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=93.08  E-value=0.043  Score=52.44  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998765

>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=93.06  E-value=0.045  Score=53.13  Aligned_cols=26  Identities=23%  Similarity=0.344  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||++.+..-.
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            34689999999999999999988765

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.05  E-value=0.044  Score=52.41  Aligned_cols=23  Identities=35%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.05  E-value=0.031  Score=52.95  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=18.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999998765

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.02  E-value=0.071  Score=55.28  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|||.|..|+||||+|+.+..-.
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45699999999999999999987665

>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=92.99  E-value=0.044  Score=52.92  Aligned_cols=25  Identities=32%  Similarity=0.284  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.99  E-value=0.053  Score=54.24  Aligned_cols=27  Identities=26%  Similarity=0.219  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|+|.|..|+|||||++.+....
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            345789999999999999999987753

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.97  E-value=0.53  Score=49.04  Aligned_cols=52  Identities=13%  Similarity=-0.015  Sum_probs=37.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  229 (863)
                      .-.++.|.|.+|+||||+|..++.... .  .=..++|++.  .-+..++...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a-~--~g~~Vl~fSl--Ems~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSAL-N--DDRGVAVFSL--EMSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHH-H--TTCEEEEEES--SSCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-H--cCCeEEEEeC--CCCHHHHHHHHHHH
Confidence            346899999999999999999988762 1  2246777665  34566776666554

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=92.92  E-value=0.052  Score=54.58  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|+.|+||||+++.++...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999998765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.85  E-value=0.058  Score=54.23  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|.|+|++|+||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999998765

>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=92.84  E-value=0.082  Score=52.73  Aligned_cols=27  Identities=19%  Similarity=0.153  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .....|+|.|++|+||||+|+.+....
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

>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=92.83  E-value=0.061  Score=49.46  Aligned_cols=27  Identities=26%  Similarity=0.225  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||++.++.-.
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            445799999999999999999988754

>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=92.82  E-value=0.058  Score=58.44  Aligned_cols=46  Identities=17%  Similarity=0.263  Sum_probs=35.8

Q ss_pred             ccccchhhHHHHHHHhhcc--------------CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED--------------QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.++.++.+...+..              ...+-|.++|++|+||||+|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            3578988888887766622              123558899999999999999999876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.73  E-value=0.048  Score=53.44  Aligned_cols=26  Identities=42%  Similarity=0.522  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999988754

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=92.72  E-value=2  Score=47.06  Aligned_cols=51  Identities=10%  Similarity=0.063  Sum_probs=35.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      .-.++.|.|.+|+||||||..++.... .. .-..++|++...  +..++...++
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~-~~-~g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVA-TK-TNENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHH-HH-SSCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-Hh-CCCcEEEEECCC--CHHHHHHHHH
Confidence            346899999999999999999887762 11 112577776543  3456665554

>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=92.71  E-value=0.054  Score=53.13  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.|.|+.|+||||+|+.++...
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999998876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=92.63  E-value=0.052  Score=52.82  Aligned_cols=25  Identities=24%  Similarity=0.138  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999876

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.62  E-value=0.42  Score=50.09  Aligned_cols=53  Identities=15%  Similarity=0.078  Sum_probs=35.2

Q ss_pred             HHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          163 DEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       163 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      -++++.+.. ..-.-++|+|.+|+|||+|+..+.+........+. ++++-+++.
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            356666644 34467899999999999999998886521112333 356666654

>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=92.58  E-value=0.058  Score=52.06  Aligned_cols=25  Identities=20%  Similarity=0.139  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|+|.|+.|+||||+++.+....
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            3579999999999999999998765

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.58  E-value=0.053  Score=52.96  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998765

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.55  E-value=0.054  Score=53.47  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.|.|+.|+||||+|+.+....
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

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=92.53  E-value=0.04  Score=51.47  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++|+|..|+|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999988766

>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=92.53  E-value=0.061  Score=52.41  Aligned_cols=25  Identities=28%  Similarity=0.239  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999876

>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=92.51  E-value=0.058  Score=52.71  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|.|++|+||||+|+.+....
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            48899999999999999998765

>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=92.50  E-value=0.064  Score=52.46  Aligned_cols=26  Identities=15%  Similarity=0.110  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45789999999999999999988765

>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=92.47  E-value=0.031  Score=54.55  Aligned_cols=24  Identities=38%  Similarity=0.598  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|.|..|+||||+|+.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            378999999999999999998766

>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=92.46  E-value=0.35  Score=52.50  Aligned_cols=90  Identities=14%  Similarity=0.148  Sum_probs=52.4

Q ss_pred             ceEEEEEcCCCChHHHHh-hhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc--c--ccChh----
Q 038405          174 EQTIGLYGMGGVGKITLL-KKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW--N--MKGEY----  243 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~--~--~~~~~----  243 (863)
                      -.-++|.|..|+|||+|| ..+.+..    +.-..++++-+++... +.++.+.+.+.=.......  .  .....    
T Consensus       162 GQR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~  237 (513)
T 3oaa_A          162 GQRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYL  237 (513)
T ss_dssp             TCBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHH
Confidence            356899999999999997 4566542    2223467888887643 5566666554321111000  0  11111    


Q ss_pred             --hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          244 --DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       244 --~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                        .....+.+++  +++.+||++||+-.
T Consensus       238 a~~~a~tiAEyfrd~G~dVLli~Dsltr  265 (513)
T 3oaa_A          238 APYAGCAMGEYFRDRGEDALIIYDDLSK  265 (513)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEecChHH
Confidence              1122344554  47999999999854

>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=92.42  E-value=0.065  Score=50.53  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.+|+|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999998765

>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=92.30  E-value=0.068  Score=55.14  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|++|+||||+++.++...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            35799999999999999999998776

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.26  E-value=0.066  Score=55.70  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|+|.|+.|+||||||+.++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998875

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=92.23  E-value=0.2  Score=52.44  Aligned_cols=85  Identities=15%  Similarity=0.099  Sum_probs=48.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .+++|+|..|+|||||++.+..-..    .-...+.+.-........        .. ..-..-..........+...|.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~----~~~g~i~i~~~~e~~~~~--------~~-~~i~~~~ggg~~~r~~la~aL~  238 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIP----KEERIISIEDTEEIVFKH--------HK-NYTQLFFGGNITSADCLKSCLR  238 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSC----TTSCEEEEESSCCCCCSS--------CS-SEEEEECBTTBCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc----CCCcEEEECCeecccccc--------ch-hEEEEEeCCChhHHHHHHHHhh
Confidence            5899999999999999999987651    123455554222111000        00 0000000022334455667777


Q ss_pred             cCcEEEEEcccccccccc
Q 038405          255 RKKFVLLLDDVWERLDLS  272 (863)
Q Consensus       255 ~k~~LlVlDdv~~~~~~~  272 (863)
                      .++=+|++|.+-....++
T Consensus       239 ~~p~ilildE~~~~e~~~  256 (330)
T 2pt7_A          239 MRPDRIILGELRSSEAYD  256 (330)
T ss_dssp             SCCSEEEECCCCSTHHHH
T ss_pred             hCCCEEEEcCCChHHHHH
Confidence            888889999987654443

>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=92.23  E-value=0.069  Score=54.59  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhh
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~  195 (863)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=92.22  E-value=0.058  Score=51.34  Aligned_cols=24  Identities=38%  Similarity=0.535  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+++|+|..|+|||||++.++...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            368999999999999999988766

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=92.13  E-value=0.059  Score=52.96  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...|.|.|++|+||||+|+.++...
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999998876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=92.12  E-value=0.075  Score=52.79  Aligned_cols=26  Identities=23%  Similarity=0.204  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .. .+++|+|+.|+|||||.+.++.-.
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            56 899999999999999999998654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.11  E-value=0.14  Score=58.78  Aligned_cols=44  Identities=16%  Similarity=0.296  Sum_probs=37.7

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.+..++.+...+...  ..+.|+|.+|+||||||+.++...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            56789998888888777655  578999999999999999999876

>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=92.10  E-value=0.081  Score=51.73  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      ..+|+|.|+.|+||||+++.+..
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            35899999999999999999875

>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=92.10  E-value=0.07  Score=51.94  Aligned_cols=27  Identities=33%  Similarity=0.373  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|.|.|+.|+||||+|+.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999998765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=92.09  E-value=0.059  Score=53.81  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.+|+|+|+.|+||||+++.++...
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3579999999999999999998865

>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=92.04  E-value=0.079  Score=49.59  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++++|+|..|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999988765

>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=91.86  E-value=0.21  Score=52.95  Aligned_cols=37  Identities=19%  Similarity=0.325  Sum_probs=28.2

Q ss_pred             HHHHHHhhc--cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          162 LDEVWGCIE--DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       162 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++.+.+.  .....+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            344444443  3567899999999999999999987665

>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=91.85  E-value=0.088  Score=52.14  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|+|||||.+.+..-.
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            345689999999999999999988654

>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=91.83  E-value=0.075  Score=52.25  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+|+|.|++|+||||+|+.+....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998765

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=91.83  E-value=0.054  Score=53.63  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=16.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhh-hcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPN-NKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~-~~~  198 (863)
                      -.+++|+|+.|+|||||++.+. ...
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 543

>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=91.82  E-value=0.08  Score=51.24  Aligned_cols=23  Identities=13%  Similarity=0.294  Sum_probs=21.5

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|+|.|+.|+||||+|+.+....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998865

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=91.77  E-value=0.076  Score=52.16  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998654

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.71  E-value=0.26  Score=53.58  Aligned_cols=98  Identities=16%  Similarity=0.144  Sum_probs=56.0

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhh-hhhhccccccCCCC-EEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc---
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLK-KPNNKFLDVNHCFD-LVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW---  237 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~---  237 (863)
                      .++.+.. ..-.-++|+|..|+|||+||. .+.+..     .-+ .++++-+++... +.++.+.+.+.=.......   
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~a  226 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTA  226 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEE
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEE
Confidence            3444432 333568999999999999965 666653     234 457788887643 5566666655322211100   


Q ss_pred             -cccChhh------HHHHHHHHh--ccCcEEEEEccccc
Q 038405          238 -NMKGEYD------RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       238 -~~~~~~~------~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       .......      .+..+.+++  +++.+||++||+-.
T Consensus       227 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr  265 (502)
T 2qe7_A          227 SASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSK  265 (502)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence             0111111      122344555  47999999999854

>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=91.69  E-value=0.088  Score=54.65  Aligned_cols=26  Identities=23%  Similarity=0.171  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|..|+|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998764

>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=91.62  E-value=0.21  Score=54.41  Aligned_cols=98  Identities=12%  Similarity=0.087  Sum_probs=55.4

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhh-hhhhccccccCCCC-EEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc---
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLK-KPNNKFLDVNHCFD-LVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW---  237 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~---  237 (863)
                      .++.+.. ..-.-++|+|..|+|||+||. .+.+..     .-+ .++++-+++... +.++.+.+.+.=.......   
T Consensus       165 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~a  239 (515)
T 2r9v_A          165 AIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVA  239 (515)
T ss_dssp             HHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEE
T ss_pred             ccccccccccCCEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEE
Confidence            3444432 233568999999999999965 666653     245 457788887643 5556666654211111000   


Q ss_pred             -cccChh------hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          238 -NMKGEY------DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       238 -~~~~~~------~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                       ......      ..+..+.+++  +++.+||++||+-.
T Consensus       240 tad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr  278 (515)
T 2r9v_A          240 SASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSK  278 (515)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHH
Confidence             011111      1122345555  47999999999854

>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=91.58  E-value=0.084  Score=50.98  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=21.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|.|.|++|+||||.|+.++.++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.56  E-value=0.095  Score=54.03  Aligned_cols=26  Identities=31%  Similarity=0.418  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+++|+|..|+||||+++.++...
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998876

>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=91.48  E-value=0.1  Score=51.75  Aligned_cols=27  Identities=22%  Similarity=0.314  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999988654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.45  E-value=0.091  Score=54.25  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.|+|+.|+||||||+.++...
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            589999999999999999998875

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.44  E-value=0.097  Score=54.23  Aligned_cols=25  Identities=32%  Similarity=0.418  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.|+|+.|+||||||..++...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            3689999999999999999998775

>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=91.39  E-value=0.16  Score=55.45  Aligned_cols=43  Identities=23%  Similarity=0.288  Sum_probs=30.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      ...+|+|+|..|+|||||++.++.... . .  .+.+++.-.+.+..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~-~-~--~G~V~l~g~D~~r~  334 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFE-Q-Q--GKSVMLAAGDTFRA  334 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHH-H-T--TCCEEEECCCTTCH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhh-h-c--CCeEEEecCcccch
Confidence            457999999999999999999987762 1 1  23445544444443

>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=91.34  E-value=0.093  Score=53.22  Aligned_cols=26  Identities=31%  Similarity=0.462  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            44689999999999999999988654

>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=91.32  E-value=0.1  Score=53.38  Aligned_cols=25  Identities=20%  Similarity=0.292  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.|.|+.|+||||||..++...
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            3589999999999999999998765

>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=91.31  E-value=0.086  Score=51.38  Aligned_cols=23  Identities=30%  Similarity=0.176  Sum_probs=20.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|+.|+||||+|+.+....
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            47899999999999999998765

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.29  E-value=0.09  Score=51.64  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|+.|+||||+|+.+....
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            58899999999999999998765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=91.28  E-value=0.087  Score=51.51  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|.|.|++|+||||+|+.++...
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=91.26  E-value=0.11  Score=52.44  Aligned_cols=27  Identities=30%  Similarity=0.358  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|+|||||.+.++.-.
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345789999999999999999998654

>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=91.19  E-value=0.1  Score=51.90  Aligned_cols=26  Identities=31%  Similarity=0.373  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998754

>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=91.18  E-value=0.11  Score=51.50  Aligned_cols=24  Identities=33%  Similarity=0.295  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|.|.|+.|+||||+|+.++...
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            569999999999999999998876

>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=91.15  E-value=0.1  Score=52.78  Aligned_cols=26  Identities=31%  Similarity=0.477  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999998754

>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=91.15  E-value=0.087  Score=51.22  Aligned_cols=26  Identities=31%  Similarity=0.505  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34679999999999999999998754

>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=91.14  E-value=0.1  Score=51.42  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|.|||||.+.++.-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998754

>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=91.12  E-value=0.19  Score=49.42  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|.|.|+.|+||||+++.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999887

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=91.11  E-value=0.075  Score=51.44  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -.+++|+|..|+|||||++.++.-
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            368999999999999999998764

>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=91.10  E-value=0.14  Score=54.94  Aligned_cols=93  Identities=13%  Similarity=0.100  Sum_probs=53.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcccccc--------CCCC-EEEEEEeCCCC-CHHHHHHHHHHHcCCCcc-----ccc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVN--------HCFD-LVIFVAVSKEG-NLEKIQEVIRKKLDISDY-----IWN  238 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~-----~~~  238 (863)
                      -.-++|+|..|+|||+|+.++++.. ...        ++-+ .++++-+++.. .+.++.+++.+.=.....     ..+
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~-~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d  225 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQA-TVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKAD  225 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHC-BCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETT
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHH-HhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCC
Confidence            3457899999999999999998875 210        1112 66777777654 345555555442101100     000


Q ss_pred             ccChh-----hHHHHHHHHhc---cCcEEEEEccccc
Q 038405          239 MKGEY-----DRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       239 ~~~~~-----~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      .....     ..+..+.++++   ++.+||++||+-.
T Consensus       226 ~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr  262 (464)
T 3gqb_B          226 DPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTN  262 (464)
T ss_dssp             SCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence            11111     12234566664   6899999999853

>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=91.09  E-value=0.12  Score=52.17  Aligned_cols=27  Identities=26%  Similarity=0.281  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            445789999999999999999998654

>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=91.07  E-value=0.1  Score=52.41  Aligned_cols=26  Identities=23%  Similarity=0.270  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998754

>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=91.07  E-value=0.38  Score=52.74  Aligned_cols=57  Identities=19%  Similarity=0.243  Sum_probs=40.6

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHH
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVI  226 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i  226 (863)
                      +++.|.. ..-..++|.|..|+|||+|+.++++..     +-+.++++-+++... +.++.+++
T Consensus       217 vID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          217 VIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             hhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4455533 334678999999999999999987753     235788888887765 45555554

>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=91.06  E-value=0.19  Score=54.33  Aligned_cols=103  Identities=10%  Similarity=0.046  Sum_probs=58.9

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhcccccc-CCCCEEEEEEeCCCC-CHHHHHHHHHHHcCCCcccc----
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVN-HCFDLVIFVAVSKEG-NLEKIQEVIRKKLDISDYIW----  237 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----  237 (863)
                      .++.|.. ..-.-++|+|.+|+|||+|+..+++...... +.=+.++++-+++.. .+.++.+++.+.=.......    
T Consensus       142 ~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~t  221 (469)
T 2c61_A          142 TIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNL  221 (469)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEE
T ss_pred             eeeeeeccccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEEC
Confidence            3455533 2335578999999999999999988762111 111467777777654 35566666654321111000    


Q ss_pred             cccCh------hhHHHHHHHHhc---cCcEEEEEccccc
Q 038405          238 NMKGE------YDRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       238 ~~~~~------~~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      .+...      ...+..+.++++   ++.+||++||+-.
T Consensus       222 sd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR  260 (469)
T 2c61_A          222 ADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITN  260 (469)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHH
Confidence            01111      112234556665   5999999999743

>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=91.01  E-value=0.11  Score=51.92  Aligned_cols=26  Identities=35%  Similarity=0.498  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=90.97  E-value=0.06  Score=55.25  Aligned_cols=26  Identities=23%  Similarity=0.362  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +..+|+|.|..|+||||+|+.+....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998764

>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=90.96  E-value=0.11  Score=52.02  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-.+++|+|..|+|||||++.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999874

>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=90.89  E-value=0.13  Score=51.27  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||.+.++.-.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345789999999999999999988654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=90.83  E-value=0.14  Score=53.12  Aligned_cols=26  Identities=35%  Similarity=0.427  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|+|+|.+|+||||++..++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999988776

>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=90.82  E-value=0.41  Score=45.44  Aligned_cols=107  Identities=11%  Similarity=0.056  Sum_probs=0.0

Q ss_pred             CCccEEEeecc-cccc----cchhhhhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCcc-----ccc
Q 038405          521 PHLQTLLVRFT-VLEI----FPHRFFESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIE-----ELP  585 (863)
Q Consensus       521 ~~Lr~L~l~~~-~l~~----l~~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~-----~lP  585 (863)
                      +.|+.|+|+++ .+..    .-...+..-+.|+.|+|++| .+.     .+-..+..-..|++|+|++|.|.     .|-
T Consensus        41 ~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n-~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala  119 (197)
T 1pgv_A           41 TDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLL  119 (197)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHH
T ss_pred             CCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCC-CCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHH


Q ss_pred             hhhhcccCccEEecCCCCC-ccc------cchhhhcCCCCCceeeccCcch
Q 038405          586 SEIMYLKNLKILLLDGMRH-FHL------IPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       586 ~~i~~L~~L~~L~l~~~~~-l~~------lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      ..+..-+.|++|+|++|.. ...      +... +..=+.|..|++..+..
T Consensus       120 ~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~a-L~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          120 RSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMA-IEENESLLRVGISFASM  169 (197)
T ss_dssp             HHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHH-HHHCSSCCEEECCCCCH
T ss_pred             HHHhhCCceeEEECCCCcCcCcCHHHHHHHHHH-HHhCCCcCeEeccCCCc

>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=90.79  E-value=0.13  Score=50.74  Aligned_cols=25  Identities=28%  Similarity=0.226  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-.+|+|.|..|+||||+++.+...
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            4578999999999999999998764

>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=90.79  E-value=0.13  Score=51.61  Aligned_cols=27  Identities=30%  Similarity=0.459  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||.+.++.-.
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            345689999999999999999998654

>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=90.70  E-value=0.1  Score=56.62  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|+|+|.+|+||||+|..++...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999988766

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=90.69  E-value=0.13  Score=51.70  Aligned_cols=27  Identities=33%  Similarity=0.340  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            345689999999999999999998765

>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=90.68  E-value=0.4  Score=60.51  Aligned_cols=87  Identities=15%  Similarity=0.014  Sum_probs=58.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|.+|+||||||.+++.... .  .-..++|++....++...     ++.++......   +..+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~-~--~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ-R--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-H--TTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-H--hCCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            457899999999999999999887762 1  224688998888777542     55666543221   223445555555


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ .+.-+||+|-+..
T Consensus       454 ~~lv~~~~~~lVVIDSL~a  472 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAA  472 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTT
T ss_pred             HHHHHhcCCCEEEECCHHH
Confidence            44443 4566999999864

>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=90.68  E-value=0.23  Score=51.08  Aligned_cols=52  Identities=15%  Similarity=0.163  Sum_probs=33.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      .-.+++|+|.+|+|||||++.++.... .. .-..++|+....  ...++...+..
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~-~~-~G~~v~~~~~e~--~~~~~~~r~~~   85 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWG-TA-MGKKVGLAMLEE--SVEETAEDLIG   85 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHH-HT-SCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH-HH-cCCeEEEEeCcC--CHHHHHHHHHH
Confidence            446899999999999999999887762 11 111466665432  34444444433

>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=90.66  E-value=0.12  Score=49.36  Aligned_cols=25  Identities=32%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.|+|+|..|+|||||++.+....
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            3578999999999999999988654

>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=90.63  E-value=0.12  Score=51.53  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999998765

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.62  E-value=0.13  Score=54.18  Aligned_cols=26  Identities=31%  Similarity=0.418  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+++|+|..|+||||+++.++...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            34799999999999999999998876

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=90.59  E-value=0.14  Score=51.96  Aligned_cols=27  Identities=26%  Similarity=0.325  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            445789999999999999999998764

>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=90.56  E-value=0.13  Score=52.55  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.|.|+.|+||||||..++...
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            4689999999999999999998775

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=90.54  E-value=0.24  Score=52.11  Aligned_cols=49  Identities=20%  Similarity=0.256  Sum_probs=33.4

Q ss_pred             hccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC
Q 038405          169 IEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN  218 (863)
Q Consensus       169 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  218 (863)
                      +.....+++.+.|.||+||||+|..++.... ....=..++-|+.....+
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la-~~~~g~~vllid~D~~~~   61 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLA-LAQPNEQFLLISTDPAHN   61 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHH-HHCTTSCEEEEECCSSCH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHH-HhcCCCeEEEEECCCCCC
Confidence            3455678999999999999999999887662 002223466666664433

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=90.53  E-value=0.46  Score=60.74  Aligned_cols=87  Identities=14%  Similarity=0.005  Sum_probs=57.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++.|+|.+|+||||||.+++....   ..-..++|++.-..++...     ++.++......   +..+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a---~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            457899999999999999999988762   2224688998887776542     55565542211   223445555555


Q ss_pred             HHHh-ccCcEEEEEccccc
Q 038405          250 LISL-RRKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l-~~k~~LlVlDdv~~  267 (863)
                      .... +.+.-+||+|.+..
T Consensus       454 ~~lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGG
T ss_pred             HHHHHhcCCcEEEECCHHH
Confidence            4433 24566999999864

>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=90.53  E-value=0.14  Score=51.81  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ..-.+++|+|..|+|||||++.++.-
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44578999999999999999999874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=90.53  E-value=0.14  Score=46.82  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|+|.+|+|||||+..+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999987653

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=90.52  E-value=0.13  Score=51.63  Aligned_cols=26  Identities=27%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999988754

>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=90.52  E-value=0.14  Score=47.42  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=90.50  E-value=0.45  Score=45.47  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.|=|.-|+||||.++.+++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L   24 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL   24 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37788999999999999999887

>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=90.43  E-value=0.12  Score=48.83  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|+|+|.+|+|||||++.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999998874

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=90.42  E-value=0.14  Score=51.66  Aligned_cols=27  Identities=26%  Similarity=0.289  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||.+.++.-.
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            345689999999999999999988654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=90.38  E-value=0.13  Score=52.32  Aligned_cols=26  Identities=38%  Similarity=0.461  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999998764

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=90.38  E-value=0.13  Score=58.68  Aligned_cols=46  Identities=13%  Similarity=0.010  Sum_probs=32.5

Q ss_pred             ccccchhhHHHHHHHhhccCCce-----------EEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQ-----------TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~-----------vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.++|.+..+..+.-.+.....+           -|.++|.+|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            34567777665555444433211           48899999999999999998765

>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=90.36  E-value=0.14  Score=52.47  Aligned_cols=27  Identities=15%  Similarity=0.181  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.-.+++|+|+.|.|||||++.+..-.
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            456789999999999999999987653

>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=90.34  E-value=0.13  Score=53.11  Aligned_cols=23  Identities=30%  Similarity=0.248  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .+|.|.|++|+||||+|+.+...
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            57899999999999999999874

>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=90.34  E-value=0.14  Score=51.51  Aligned_cols=26  Identities=23%  Similarity=0.307  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...++.+.|.||+||||++..++...
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            35788999999999999999998665

>1fx0_A ATP synthase alpha 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_A*

Probab=90.33  E-value=0.2  Score=54.62  Aligned_cols=88  Identities=11%  Similarity=0.158  Sum_probs=50.0

Q ss_pred             eEEEEEcCCCChHHHHhh-hhhhccccccCCCC-EEEEEEeCCCCC-HHHHHHHHHHHcCCCcc-----ccccc-----C
Q 038405          175 QTIGLYGMGGVGKITLLK-KPNNKFLDVNHCFD-LVIFVAVSKEGN-LEKIQEVIRKKLDISDY-----IWNMK-----G  241 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~-----~~~~~-----~  241 (863)
                      .-++|+|..|+|||+||. .+.+..   .  -+ .++++-+++... +.++.+.+.+.=.....     ..+..     -
T Consensus       164 QR~~Ifg~~g~GKT~Lal~~I~~~~---~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          164 QRELIIGDRQTGKTAVATDTILNQQ---G--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC---T--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CEEEEecCCCCCccHHHHHHHHHhh---c--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            458999999999999964 666653   2  34 467788887643 44555555432111000     00000     0


Q ss_pred             hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          242 EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       242 ~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      ....+..+.+++  +++.+||++||+-.
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dsltr  266 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDLSK  266 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence            111223344444  47999999999743

>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=90.32  E-value=0.15  Score=55.39  Aligned_cols=27  Identities=19%  Similarity=0.276  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|.|+|++|+||||+|+.+..+.
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            456899999999999999999998765

>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=90.32  E-value=0.13  Score=48.59  Aligned_cols=24  Identities=21%  Similarity=0.129  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|.|..|+||||||..+..+.
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            668999999999999999988764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=90.30  E-value=0.25  Score=46.83  Aligned_cols=26  Identities=23%  Similarity=0.218  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|+|+|.+|+|||||+..+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44579999999999999999988654

>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=90.23  E-value=0.28  Score=48.35  Aligned_cols=37  Identities=19%  Similarity=0.246  Sum_probs=27.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEE
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVA  212 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  212 (863)
                      ...|.|.|+.|+||||+++.+.....  ...+..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~--~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ--QNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH--HTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--hcCCCeeeeec
Confidence            36899999999999999999998872  34455344433

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=90.18  E-value=0.16  Score=51.12  Aligned_cols=110  Identities=13%  Similarity=0.063  Sum_probs=56.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-CCCHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-EGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      ..-.+++|+|+.|+|||||++.+.....   ..+...+++.-.. .+-...   .+  .+ ..... -..+.......+.
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~---~~~~G~I~~~g~~i~~~~~~---~~--~~-v~q~~-~gl~~~~l~~~la   92 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYIN---QTKSYHIITIEDPIEYVFKH---KK--SI-VNQRE-VGEDTKSFADALR   92 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH---HHCCCEEEEEESSCCSCCCC---SS--SE-EEEEE-BTTTBSCHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC---CCCCCEEEEcCCcceeecCC---cc--ee-eeHHH-hCCCHHHHHHHHH
Confidence            4557999999999999999999887541   1112233322111 000000   00  00 00000 0001123455667


Q ss_pred             HHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecch
Q 038405          251 ISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSE  294 (863)
Q Consensus       251 ~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~  294 (863)
                      ..|..++=+|++|..-+......+....   ..|.-|++||-+.
T Consensus        93 ~aL~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~  133 (261)
T 2eyu_A           93 AALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTN  133 (261)
T ss_dssp             HHHHHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCS
T ss_pred             HHHhhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcc
Confidence            7777777789999986433322221111   2355678888654

>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=90.14  E-value=0.29  Score=51.15  Aligned_cols=49  Identities=24%  Similarity=0.266  Sum_probs=34.4

Q ss_pred             hccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          169 IEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       169 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      +.+...+++.+.|-||+||||+|..++....   ..-..++-|+.....++.
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~~vllid~D~~~~l~   59 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRRSVLLLSTDPAHNLS   59 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSSCEEEEECCSSCHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCCcEEEEECCCCCChh
Confidence            3445578888999999999999999887762   222356677766544433

>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=90.11  E-value=0.39  Score=52.38  Aligned_cols=102  Identities=12%  Similarity=0.093  Sum_probs=56.5

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhh-hhhhccccc----cCCCC-EEEEEEeCCCCC-HHHHHHHHHHHcCCCccc
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLK-KPNNKFLDV----NHCFD-LVIFVAVSKEGN-LEKIQEVIRKKLDISDYI  236 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~-~v~~~~~~~----~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~  236 (863)
                      .++.+.. ..-.-++|+|..|+|||+||. .+.+.. ..    ..+-+ .++++-+++... +.++.+.+.+.=......
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~-~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tv  230 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQK-RFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI  230 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTH-HHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEE
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHH-hhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccce
Confidence            3444432 333568999999999999954 566654 21    01234 577888887643 556666665422111100


Q ss_pred             c----cccChh------hHHHHHHHHh--ccCcEEEEEccccc
Q 038405          237 W----NMKGEY------DRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       237 ~----~~~~~~------~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      .    ......      ..+..+.+++  +++.+||++||+-.
T Consensus       231 vV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  273 (510)
T 2ck3_A          231 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  273 (510)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHH
Confidence            0    011111      1122344555  47999999999854

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=90.09  E-value=0.16  Score=50.29  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998765

>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=90.08  E-value=0.14  Score=49.18  Aligned_cols=24  Identities=33%  Similarity=0.387  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.|+|+|..|+|||||.+.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999988753

>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=90.04  E-value=0.36  Score=46.78  Aligned_cols=32  Identities=19%  Similarity=0.193  Sum_probs=25.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCE
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDL  207 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~  207 (863)
                      -..|.|-|+.|+||||+++.+.....  ...+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~v   37 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLR--ERGIEV   37 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH--TTTCCE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHH--HcCCCc
Confidence            35799999999999999999998872  234544

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=89.99  E-value=0.32  Score=47.13  Aligned_cols=52  Identities=15%  Similarity=0.127  Sum_probs=33.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      ..|.|-|+.|+||||+++.++....  ...+..+.+..-.....+.+..++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH--HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            5789999999999999999998873  234433333332222234455555554

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=89.89  E-value=0.25  Score=49.95  Aligned_cols=38  Identities=21%  Similarity=0.424  Sum_probs=27.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      ++|+|.|-||+||||+|..++.... .  .-..++.|....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la-~--~G~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH-A--MGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH-T--TTCCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH-H--CCCcEEEEcCCC
Confidence            6788899999999999999887762 1  122456666553

>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=89.83  E-value=0.14  Score=52.21  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.++.|+|.+|+|||||+..++...
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34789999999999999999988644

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=89.67  E-value=0.18  Score=50.97  Aligned_cols=26  Identities=19%  Similarity=0.169  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|.|.|..|+||||+|+.+....
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998775

>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=89.62  E-value=0.18  Score=53.64  Aligned_cols=27  Identities=19%  Similarity=-0.002  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...++++|+|+.|.|||||++.++...
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            455799999999999999999998754

>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=89.60  E-value=0.53  Score=59.44  Aligned_cols=86  Identities=15%  Similarity=0.038  Sum_probs=60.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHHH
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEIL  250 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~  250 (863)
                      -++|-|+|+.|+||||||.++....   ...=..++|+.+-+..+..-     ++.+++.....   +..+.++....+.
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            4799999999999999999988765   23345789998888877664     77777765432   2233355555555


Q ss_pred             HHhc-cCcEEEEEccccc
Q 038405          251 ISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       251 ~~l~-~k~~LlVlDdv~~  267 (863)
                      ..++ +.--+||+|-|..
T Consensus      1503 ~~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1503 ALARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTT
T ss_pred             HHHHcCCCCEEEEccHHh
Confidence            5555 4566899999853

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=89.58  E-value=0.16  Score=51.04  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -.+++|+|..|+|||||.+.++.-
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999998754

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=89.56  E-value=0.22  Score=46.73  Aligned_cols=35  Identities=23%  Similarity=0.350  Sum_probs=25.6

Q ss_pred             HHHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          163 DEVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       163 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .++.+.+.. .....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A            6 SSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             HHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            334444433 45567899999999999999988743

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=89.55  E-value=11  Score=39.42  Aligned_cols=26  Identities=35%  Similarity=0.309  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|+|+|.+|+|||||...+....
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999987654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=89.55  E-value=0.25  Score=47.84  Aligned_cols=40  Identities=23%  Similarity=0.230  Sum_probs=27.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN  218 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  218 (863)
                      .|.+.|.||+||||+|..++....  ...++ +.++.+.....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~--~~G~~-V~v~d~D~q~~   47 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQL--RQGVR-VMAGVVETHGR   47 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHH--HTTCC-EEEEECCCTTC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH--HCCCC-EEEEEeCCCCC
Confidence            478899999999999998888762  22333 44455544333

>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=89.43  E-value=0.18  Score=48.59  Aligned_cols=42  Identities=19%  Similarity=0.109  Sum_probs=21.1

Q ss_pred             chhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          157 GADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |++...+.+.+.......-.|+|+|.+|+|||||+..+.+..
T Consensus        13 ~~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            344444444444444445568999999999999998887543

>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=89.40  E-value=0.25  Score=54.53  Aligned_cols=43  Identities=12%  Similarity=-0.059  Sum_probs=32.2

Q ss_pred             cchhhHHHHHHHhh--ccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          156 VGADSKLDEVWGCI--EDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       156 vGr~~~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.+-.+.+.+..  ......+|.+.|+.|+||||+|+.++...
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            34555555555555  22345789999999999999999999987

>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=89.40  E-value=0.16  Score=46.55  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.++|.+|+|||||+..+....
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            48899999999999999987653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=89.40  E-value=0.19  Score=47.55  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ..|+|+|.+|+|||||...+...
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            46899999999999999998864

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=89.39  E-value=0.16  Score=52.26  Aligned_cols=27  Identities=33%  Similarity=0.444  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||++.+..-.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            455789999999999999999987654

>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=89.27  E-value=0.18  Score=46.50  Aligned_cols=24  Identities=21%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            358899999999999999987653

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=89.17  E-value=0.17  Score=51.12  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|+|..|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999988754

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=89.13  E-value=0.25  Score=46.48  Aligned_cols=25  Identities=40%  Similarity=0.529  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ....|.|+|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567899999999999999998765

>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=89.08  E-value=0.18  Score=47.73  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|+|.+|+|||||+..+....
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            58899999999999999987653

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=88.97  E-value=0.17  Score=49.32  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+||.|++|+||||+|+.+....
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999998876

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=88.95  E-value=0.19  Score=46.76  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      --|+|+|.+|+|||||+..+....
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEECCCCccHHHHHHHHhcCC
Confidence            458999999999999999987653

>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=88.95  E-value=0.34  Score=45.73  Aligned_cols=34  Identities=21%  Similarity=0.472  Sum_probs=25.5

Q ss_pred             HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          163 DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       163 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ..+.+ +.......|.|+|.+|+|||||...+...
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            34555 33345567899999999999999998754

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=88.94  E-value=0.2  Score=49.71  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|.|.|..|+||||+++.++...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998876

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=88.93  E-value=0.21  Score=51.08  Aligned_cols=27  Identities=26%  Similarity=0.378  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||.+.++.-.
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            345789999999999999999988654

>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=88.90  E-value=0.18  Score=53.53  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|+.|+||||||..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            589999999999999999998776

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=88.89  E-value=0.25  Score=53.13  Aligned_cols=26  Identities=19%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ....+++|+|..|+|||||.+.+...
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCC
Confidence            34568999999999999999999873

>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=88.81  E-value=0.28  Score=50.22  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=28.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      .++|+|.|-||+||||+|..++.... .. . ..++-|....
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La-~~-G-~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA-EM-G-KKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH-HT-T-CCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH-HC-C-CeEEEEecCC
Confidence            46889999999999999999887762 11 1 2455666553

>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=88.78  E-value=0.59  Score=51.50  Aligned_cols=57  Identities=18%  Similarity=0.230  Sum_probs=39.5

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHH
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVI  226 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i  226 (863)
                      +++.|.. ..-..++|.|..|+|||+|+.++++..     +-+.++++-+++.. .+.++.+++
T Consensus       222 vID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          222 VIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             HHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHHT
T ss_pred             hhhccCCccCCCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            4555533 344678999999999999999998764     23578888888763 344444443

---

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	863
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-31
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-08
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	6e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	7e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.001
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	1e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	3e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	2e-05
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	4e-05
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	5e-05
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	1e-04
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	2e-04
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	7e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	7e-04
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.003
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.004

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  120 bits (302), Expect = 6e-31
 Identities = 33/272 (12%), Positives = 77/272 (28%), Gaps = 39/272 (14%)

Query: 152 TEKTVGADSKLDEVW---GCIEDQSEQTIGLYGMGGVGKITLLKKP-NNKFLDVNHCFDL 207
                  +  +D V      + D     + L+G  G GK  +  +  +     +   +D 
Sbjct: 19  QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDS 78

Query: 208 VIFVAVSKEGNLEKIQEVIRKKLDISDYIW--------NMKGEYDRAVEILISLRRKKFV 259
           ++++  S               L +             ++     + +     + R   +
Sbjct: 79  IVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTL 138

Query: 260 LLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC-----------VECLSPEAALD 308
            + DDV +              +   + + TTR  E+            V  L  +   D
Sbjct: 139 FVFDDVVQEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYD 192

Query: 309 LFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQR 368
                          +   +    +    G P  L+   ++    ++  +   + ++L+ 
Sbjct: 193 FLEAYGMPM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLES 249

Query: 369 NPSRFAGMGNLVFPILRFSYDNLTDDTLKTCF 400
                      V  I  +SY +L    L+ C 
Sbjct: 250 RGL------VGVECITPYSYKSL-AMALQRCV 274

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 55.0 bits (131), Expect = 1e-08
 Identities = 46/288 (15%), Positives = 85/288 (29%), Gaps = 27/288 (9%)

Query: 509 GSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGAL 568
              +E +P+   P    L ++   +       F+++  L  L L  N      P     L
Sbjct: 19  DLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPL 78

Query: 569 INLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTE 628
           + L  L LS   ++ELP ++         L         +   VF+ L  + V  L +  
Sbjct: 79  VKLERLYLSKNQLKELPEKMPKTLQ---ELRVHENEITKVRKSVFNGLNQMIVVELGTNP 135

Query: 629 LIELHRMPP--NQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMH 686
           L               L  +      I  I                  L   +  L +  
Sbjct: 136 LKSSGIENGAFQGMKKLSYIRIADTNITTI---------------PQGLPPSLTELHLDG 180

Query: 687 NLDSHSI--DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWI 744
           N  +      L+ + +L  L +                N  +L  L +    +++    +
Sbjct: 181 NKITKVDAASLKGLNNLAKLGLSFN--SISAVDNGSLANTPHLRELHLNNNKLVKVPGGL 238

Query: 745 REAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLP 792
            +   +Q + L N   +S I  +        +    A    + L S P
Sbjct: 239 ADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNTKK--ASYSGVSLFSNP 283

>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 = 51.0 bits (120), Expect = 3e-07
 Identities = 45/281 (16%), Positives = 79/281 (28%), Gaps = 15/281 (5%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFH 606
              L+L+ NL L+ LP       +L  L  S  S+ ELP     LK+L +   +      
Sbjct: 40  AHELELN-NLGLSSLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSD 95

Query: 607 LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASAL 666
           L P      LL     S    E +   +       I    +   N + ++     S   +
Sbjct: 96  LPP------LLEYLGVSNNQLEKLPELQNSSFLKII----DVDNNSLKKLPDLPPSLEFI 145

Query: 667 FKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHN 726
              N   +    ++ L  +  + + +  L+ +  L        +   +        N   
Sbjct: 146 AAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPF 205

Query: 727 LHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVI 786
           L  +      +            L                           +  + L   
Sbjct: 206 LTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPN 265

Query: 787 DLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDS 827
                 S   I       PSL+ ++V+N   L ELP     
Sbjct: 266 LYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPALPPR 305

>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 = 50.2 bits (118), Expect = 6e-07
 Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 8/98 (8%)

Query: 499 WREDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDL 558
              +       S+         P L+ L V    L   P         L+ L  S+N  L
Sbjct: 262 LPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELP----ALPPRLERLIASFN-HL 316

Query: 559 TQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKI 596
            ++P       NL+ L++    + E P     +++L++
Sbjct: 317 AEVPELPQ---NLKQLHVEYNPLREFPDIPESVEDLRM 351

>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 = 46.9 bits (110), Expect = 7e-06
 Identities = 39/200 (19%), Positives = 71/200 (35%), Gaps = 29/200 (14%)

Query: 534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
           +I P     +   L  L L+ N  L  +   + +L NL  L+L+N  I  L   +  L  
Sbjct: 211 DITPLGILTN---LDELSLNGNQ-LKDIG-TLASLTNLTDLDLANNQISNLAP-LSGLTK 264

Query: 594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
           L  L L   +  ++ P    ++L +L++              P +    L  L    N I
Sbjct: 265 LTELKLGANQISNISPLAGLTALTNLELNENQLE-----DISPISNLKNLTYLTLYFNNI 319

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLER 713
            +I   + S              + ++RL   +N  S    L N+ ++  L+     +  
Sbjct: 320 SDI-SPVSS-------------LTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISD 365

Query: 714 VDPTFNGWTNFHNLHHLSIR 733
           + P      N   +  L + 
Sbjct: 366 LTP----LANLTRITQLGLN 381

>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 = 45.8 bits (107), Expect = 1e-05
 Identities = 46/286 (16%), Positives = 97/286 (33%), Gaps = 12/286 (4%)

Query: 542 ESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
             +  +  L       +  +   +  L NL  +N SN  + ++   +  L  L  +L++ 
Sbjct: 41  TDLDQVTTLQADRL-GIKSIDG-VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNN 97

Query: 602 MRHFHLIPARVFSS--LLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISIT 659
            +   + P    ++   L+L    +   + ++            + +  +       S+ 
Sbjct: 98  NQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQ 157

Query: 660 LGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFN 719
             S              + ++RL I  N  S    L  + +LE+L      +  + P   
Sbjct: 158 QLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITP--- 214

Query: 720 GWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNY 779
                 NL  LS+     ++D+  +    NL  L L N Q +S +   +G +++ E    
Sbjct: 215 -LGILTNLDELSLNGNQ-LKDIGTLASLTNLTDLDLANNQ-ISNLAPLSGLTKLTELKLG 271

Query: 780 FAYLM-VIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFN 824
              +  +  L  L +L  +         +  +S         L FN
Sbjct: 272 ANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN 317

>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 = 41.9 bits (97), Expect = 2e-04
 Identities = 40/202 (19%), Positives = 77/202 (38%), Gaps = 26/202 (12%)

Query: 565 MGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSL 624
           +  L NL  L  +N  I ++    +   NL  L L+G +   +      +SL +L    L
Sbjct: 193 LAKLTNLESLIATNNQISDITPLGIL-TNLDELSLNGNQLKDIGT---LASLTNLTDLDL 248

Query: 625 FSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTI 684
            + ++  L   P +  T L EL+   NQI  IS                   + +  L +
Sbjct: 249 ANNQISNLA--PLSGLTKLTELKLGANQISNIS--------------PLAGLTALTNLEL 292

Query: 685 MHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWI 744
             N       + N+ +L  L +   ++  + P     ++   L  L       + D++ +
Sbjct: 293 NENQLEDISPISNLKNLTYLTLYFNNISDISP----VSSLTKLQRLFFANNK-VSDVSSL 347

Query: 745 REAPNLQFLSLVNCQALSEIIE 766
               N+ +LS  + Q +S++  
Sbjct: 348 ANLTNINWLSAGHNQ-ISDLTP 368

>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 = 41.5 bits (96), Expect = 3e-04
 Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 5/83 (6%)

Query: 519 PCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN 578
              +L  L + F  +         S+  L+ L  + N  ++ +   +  L N+  L+  +
Sbjct: 305 NLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFANNK-VSDVS-SLANLTNINWLSAGH 360

Query: 579 TSIEELPSEIMYLKNLKILLLDG 601
             I +L   +  L  +  L L+ 
Sbjct: 361 NQISDLT-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 = 40.0 bits (92), Expect = 0.001
 Identities = 37/286 (12%), Positives = 86/286 (30%), Gaps = 18/286 (6%)

Query: 541 FESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD 600
            E +  L  ++ S N  LT +   +  L  L  + ++N  I ++           + L +
Sbjct: 62  VEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFN 119

Query: 601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL 660
                      + +         L S  + ++  +    +            +  ++   
Sbjct: 120 NQITDIDPLKNLTNL----NRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLT 175

Query: 661 GSASALFKINFSWK-----LCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVD 715
                    N           + ++ L   +N  S    L  + +L+ L++    L+ + 
Sbjct: 176 TLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG 235

Query: 716 PTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAE 775
                  +  NL  L +     I +L  +     L  L L   Q  +    +  ++    
Sbjct: 236 T----LASLTNLTDLDLANNQ-ISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNL 290

Query: 776 SHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLREL 821
             N      +  + +L +L  +         +  VS  +   L+ L
Sbjct: 291 ELNENQLEDISPISNLKNLTYLTLYFNNISDISPVS--SLTKLQRL 334

>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 = 45.9 bits (107), Expect = 1e-05
 Identities = 35/218 (16%), Positives = 70/218 (32%), Gaps = 13/218 (5%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI--EELPSEIMYLKNLKILLLDGMRH 604
           +          + Q  AE  +   ++ ++LSN+ I    L   +     L+ L L+G+R 
Sbjct: 25  VIAFRCP-RSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRL 83

Query: 605 FHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTI--LDELECLGNQIYEISITLGS 662
              I     +   +L   +L          +    ++   LDEL       +       +
Sbjct: 84  SDPIV-NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA 142

Query: 663 ASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWT 722
            + + +      L    K L               +    + +++       +  F  + 
Sbjct: 143 VAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLK-----NDCFQEFF 197

Query: 723 NFHNLHHLSIRVCPVIRD--LTWIREAPNLQFLSLVNC 758
             + L HLS+  C  I    L  + E P L+ L +   
Sbjct: 198 QLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI 235

>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 = 44.3 bits (103), Expect = 3e-05
 Identities = 40/296 (13%), Positives = 87/296 (29%), Gaps = 28/296 (9%)

Query: 550 LDLSYNLDLTQLPAEMGALI--NLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHL 607
           LDL+        P   G L+   +       + +++  +E      ++ + L        
Sbjct: 5   LDLTGK---NLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 608 IPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALF 667
               + S    L+  SL    L +       + + L  L   G   +         S+  
Sbjct: 62  TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS 121

Query: 668 KINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNL 727
           +++              +    +H  +    ++L          +            H  
Sbjct: 122 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD 181

Query: 728 HHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVID 787
              S+ +           +   LQ LSL  C  +                       +++
Sbjct: 182 LSDSVMLKNDCFQ--EFFQLNYLQHLSLSRCYDIIPET-------------------LLE 220

Query: 788 LDSLPSLKRI-CHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEWW 842
           L  +P+LK +   G +P  +LQ +     P+L+    +F +     +  + + E W
Sbjct: 221 LGEIPTLKTLQVFGIVPDGTLQLL-KEALPHLQINCSHFTTIARPTIGNKKNQEIW 275

>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 = 44.3 bits (103), Expect = 2e-05
 Identities = 38/230 (16%), Positives = 75/230 (32%), Gaps = 20/230 (8%)

Query: 534 EIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKN 593
            IFP     +      +    + ++T    +   L  +  L+   T +  +   + YL N
Sbjct: 11  VIFPDPALAN---AIKIAAGKS-NVTDTVTQ-ADLDGITTLSAFGTGVTTI-EGVQYLNN 64

Query: 594 LKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQI 653
           L  L    ++   +       +L  +    L    L  +  +   Q+    +L       
Sbjct: 65  LIGL---ELKDNQITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITD 121

Query: 654 YEISITLGSASALFKINFSWKLCSCIKRLTIMHNLD------SHSIDLRNMMHLETLNIV 707
                 L +   L+         S +  LT +  L       S    L N+  L TL   
Sbjct: 122 VTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKAD 181

Query: 708 ECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN 757
           +  +  + P      +  NL  + ++    I D++ +    NL  ++L N
Sbjct: 182 DNKISDISP----LASLPNLIEVHLKNNQ-ISDVSPLANTSNLFIVTLTN 226

>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 = 41.6 bits (97), Expect = 4e-05
 Identities = 24/124 (19%), Positives = 44/124 (35%), Gaps = 24/124 (19%)

Query: 548 KVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNL------------- 594
           +VL L++  DLT L   +  L+ +  L+LS+  +  LP  +  L+ L             
Sbjct: 1   RVLHLAHK-DLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 595 ---------KILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDE 645
                    + LLL   R       +   S   L + +L    L +   +      +L  
Sbjct: 59  DGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPS 118

Query: 646 LECL 649
           +  +
Sbjct: 119 VSSI 122

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 43.6 bits (101), Expect = 5e-05
 Identities = 41/233 (17%), Positives = 73/233 (31%), Gaps = 24/233 (10%)

Query: 555 NLDLTQLPAEMGALINLRCLNLSNTSIEELP-SEIMYLKNLKILLLDGMRHFHLIPARVF 613
             +LT LP ++    +   L+LS   +     + +M    L  L LD      L      
Sbjct: 19  KRNLTALPPDLPK--DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTL 76

Query: 614 SSLLSLKVFSLFSTELIELHRMPPNQTTILDELECL-GNQIYEISITLGSASALFKINFS 672
             L +L +       L  L +  P  T +      L    +  +           K N  
Sbjct: 77  PVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNEL 136

Query: 673 WKLCSCIKRLTIMHNLDSHSI---------DLRNMMHLETLNIVECSLERVDPTFNGWTN 723
             L   +   T      S +           L  + +L+TL + E SL  +     G+  
Sbjct: 137 KTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPK---GFFG 193

Query: 724 FHNLHHLSIRVCP-----VIRDL-TWIREAPN--LQFLSLVNCQALSEIIESA 768
            H L    +   P      I     W+++       +   V+ +A++  + S 
Sbjct: 194 SHLLPFAFLHGNPWLCNCEILYFRRWLQDNAENVYVWKQGVDVKAMTSNVASV 246

>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 = 41.0 bits (95), Expect = 1e-04
 Identities = 25/113 (22%), Positives = 43/113 (38%), Gaps = 5/113 (4%)

Query: 545 GALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRH 604
           G+ + LDL     L   P ++ A      LN  ++    L      +  L  L L   R 
Sbjct: 22  GSQQALDLK---GLRSDP-DLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRL 77

Query: 605 FHLIP-ARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEI 656
           + L   + +     +LK+ +L   EL     +   +   L+EL   GN + + 
Sbjct: 78  YRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDT 130

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (94), Expect = 2e-04
 Identities = 21/149 (14%), Positives = 42/149 (28%), Gaps = 9/149 (6%)

Query: 557 DLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSL 616
           +L +  A+    +  R L+L    I  + +    L     +         L     F  L
Sbjct: 6   ELIEQAAQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDG---FPLL 62

Query: 617 LSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLC 676
             LK   + +  +  +          L EL    N + E+             +      
Sbjct: 63  RRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDL------DPLASLKSLTY 116

Query: 677 SCIKRLTIMHNLDSHSIDLRNMMHLETLN 705
            CI R  + +        +  +  +  L+
Sbjct: 117 LCILRNPVTNKKHYRLYVIYKVPQVRVLD 145

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (89), Expect = 7e-04
 Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 547 LKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFH 606
            + LDL     +  +      L     ++ S+  I +L      L+ LK LL++  R   
Sbjct: 20  DRELDLRGY-KIPVIENLGATLDQFDAIDFSDNEIRKLDG-FPLLRRLKTLLVNNNRICR 77

Query: 607 LIP 609
           +  
Sbjct: 78  IGE 80

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 40.1 bits (92), Expect = 7e-04
 Identities = 11/51 (21%), Positives = 18/51 (35%)

Query: 551 DLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDG 601
           DL  N     LP  +  L  L  LN+S  ++     +   L+   +     
Sbjct: 250 DLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYAN 300

>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 = 37.7 bits (86), Expect = 0.003
 Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)

Query: 547 LKVLDLSYNL-DLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHF 605
            + ++L   +  + ++ A +  L   + L LS  +IE++ S +  ++NL+IL L      
Sbjct: 25  AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISS-LSGMENLRILSLGRNLIK 83

Query: 606 H 606
            
Sbjct: 84  K 84

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (85), Expect = 0.004
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLSN 578
               +  L     LE  P+  F       +LD+S    +  LP+  +  L  LR  +  N
Sbjct: 176 TQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPSYGLENLKKLRARSTYN 234

Query: 579 TSIEELPS 586
             +++LP+
Sbjct: 235 --LKKLPT 240

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	863
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.78
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.75
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.73
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.71
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.71
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.7
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.67
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.65
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.59
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.58
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.57
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.56
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.54
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.53
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.53
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.44
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.43
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.4
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.38
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.36
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.28
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.25
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.24
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.23
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.04
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.03
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.98
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.97
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.82
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.79
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.74
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.65
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.64
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.63
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.6
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.59
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.58
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.51
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.49
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.46
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.33
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.31
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.31
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.17
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.13
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.08
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.05
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.99
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.88
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.85
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.81
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.79
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.75
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.66
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.57
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.49
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.46
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.09
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.47
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.43
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.38
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.37
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.34
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.25
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.19
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.18
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.14
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.13
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.0
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.97
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.93
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.85
d1okkd2	207	GTPase domain of the signal recognition particle r	95.82
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.81
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.75
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.73
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.73
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.73
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.72
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.67
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.6
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.58
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.57
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.55
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.55
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.54
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.49
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.38
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.31
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.3
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.3
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.29
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.26
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.21
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.14
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.12
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.95
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	94.93
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.88
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.88
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.82
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.78
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.61
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	94.52
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.5
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.42
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	94.28
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.24
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.21
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.16
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.13
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.11
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.01
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.99
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	93.93
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.91
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.9
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.85
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.83
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	93.82
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.8
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.75
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.74
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.74
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.71
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.66
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.53
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.43
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.35
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.11
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.09
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.91
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.86
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.82
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.68
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.61
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.42
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.31
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.23
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.19
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.18
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	92.03
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.96
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.93
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.93
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.91
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.69
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	91.66
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.64
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.63
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.59
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.51
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	91.5
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	91.41
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	91.34
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.32
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	91.29
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.28
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.21
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.11
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.08
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.06
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.03
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	90.93
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	90.82
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	90.74
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	90.71
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.63
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.54
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.44
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.3
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	90.28
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	90.18
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	90.14
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.08
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	90.08
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.02
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	90.01
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	90.0
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	89.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	89.92
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.91
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	89.88
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	89.86
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	89.54
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	89.4
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	89.31
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	89.27
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	89.24
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	89.23
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.19
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	89.14
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.14
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	89.05
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	89.04
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.98
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	88.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.93
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	88.88
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	88.87
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	88.86
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	88.81
d1nrjb_	209	Signal recognition particle receptor beta-subunit	88.81
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	88.76
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.76
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	88.65
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	88.64
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	88.63
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.58
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	88.53
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	88.49
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	88.45
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.43
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.42
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	88.33
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.33
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	88.3
d2fh5b1	207	Signal recognition particle receptor beta-subunit	88.26
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	88.06
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	87.84
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	87.83
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	87.78
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	87.74
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	87.66
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	87.49
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	87.44
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	87.42
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	87.35
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	87.24
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.17
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	87.05
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	86.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	86.83
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.75
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	86.74
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	86.7
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	86.48
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	86.43
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	86.4
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	86.36
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	86.27
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	86.22
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	85.96
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	85.67
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.55
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	85.42
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	85.34
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	85.29
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	84.55
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	84.18
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	84.15
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	82.94
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	82.9
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	82.57
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.14
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	82.11
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	82.05
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	81.72
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	81.4
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	80.98
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	80.31

>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=4.4e-39  Score=332.45  Aligned_cols=235  Identities=14%  Similarity=0.127  Sum_probs=188.3

Q ss_pred             ccccchhhHHHHHHHhhc---cCCceEEEEEcCCCChHHHHhhhhhhccc-cccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIE---DQSEQTIGLYGMGGVGKITLLKKPNNKFL-DVNHCFDLVIFVAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  228 (863)
                      +.++||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++.. ....+|++++||++++.++...+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~   99 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI   99 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHH
Confidence            457899999999999994   35688999999999999999999998752 24678999999999999887777665544


Q ss_pred             H---cCCCcccc-----cccChhhHHHHHHHHhccCcEEEEEcccccccccccccccCCCCCCCeEEEEeecchhhh---
Q 038405          229 K---LDISDYIW-----NMKGEYDRAVEILISLRRKKFVLLLDDVWERLDLSKTGVSLSDCQNGSKIVFTTRSEEVC---  297 (863)
Q Consensus       229 ~---l~~~~~~~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~~~l~~~~~gs~iivTTr~~~v~---  297 (863)
                      .   ++......     ...+.......+.+.+.++|+|+||||||+..+|..+.      ..|||||||||++.++   
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3         100 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHhc
Confidence            3   32221100     11122333445777889999999999999988887553      2489999999999987   


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHHHHHHHHhCCCChhhHHHHHHHHhcC
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALITIARAMSSRRSPREWQYVIDELQRN  369 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~~w~~~~~~l~~~  369 (863)
                              +++|+.+|||+||..+++...  ..+..++++++|+++|+|+|||++++|+.|+. ++.+.|.+..+++...
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~  250 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESR  250 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHH
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcC
Confidence                    889999999999999887653  34456889999999999999999999999986 6889999988888653


Q ss_pred             CCccCCCCccccchhhcccCCCChhhHhHHhhhh
Q 038405          370 PSRFAGMGNLVFPILRFSYDNLTDDTLKTCFLYC  403 (863)
Q Consensus       370 ~~~~~~~~~~i~~~l~~sy~~L~~~~~k~cfl~~  403 (863)
                      ..      +.+..++.+||++||++ +|.||-++
T Consensus       251 ~~------~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         251 GL------VGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             CS------STTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             cH------HHHHHHHHHHHhcccHH-HHHHHHhC
Confidence            22      46899999999999996 99999764

>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=99.78  E-value=2.2e-18  Score=180.86  Aligned_cols=283  Identities=18%  Similarity=0.173  Sum_probs=194.0

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~i  581 (863)
                      +.++-.+..++.+|....+++++|++++|.++.+|+..|.++++|++|++++| .+..+ |..|.++++|++|++++|++
T Consensus        13 ~~~~C~~~~L~~lP~~l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n-~~~~i~~~~f~~l~~L~~L~l~~n~l   91 (305)
T d1xkua_          13 RVVQCSDLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKNQL   91 (305)
T ss_dssp             TEEECTTSCCCSCCCSCCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCCCccCCCCCCCCCEEECcCCcCCCcChhHhhccccccccccccc-cccccchhhhhCCCccCEecccCCcc
Confidence            44566667788888877889999999999999999888999999999999999 55555 67799999999999999999


Q ss_pred             cccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeec
Q 038405          582 EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLG  661 (863)
Q Consensus       582 ~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~  661 (863)
                      +.+|..+  ...|..|++.+|. +..++...+.....+..+....+.........       ..+..+. .++.+.+...
T Consensus        92 ~~l~~~~--~~~l~~L~~~~n~-l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~-------~~~~~l~-~L~~l~l~~n  160 (305)
T d1xkua_          92 KELPEKM--PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIEN-------GAFQGMK-KLSYIRIADT  160 (305)
T ss_dssp             SBCCSSC--CTTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCCGGGBCT-------TGGGGCT-TCCEEECCSS
T ss_pred             CcCccch--hhhhhhhhccccc-hhhhhhhhhhccccccccccccccccccCCCc-------ccccccc-ccCccccccC
Confidence            9999754  4688999999887 67777776778888888887765432211111       0111111 2222222222


Q ss_pred             CchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCC
Q 038405          662 SASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR  739 (863)
Q Consensus       662 ~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~  739 (863)
                      ....   +.  ...+++++.|++++|.......  +.+++.+++|++++|.+.++++.  .+..+++|++|+|++|....
T Consensus       161 ~l~~---l~--~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~--~~~~l~~L~~L~L~~N~L~~  233 (305)
T d1xkua_         161 NITT---IP--QGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNG--SLANTPHLRELHLNNNKLVK  233 (305)
T ss_dssp             CCCS---CC--SSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTT--TGGGSTTCCEEECCSSCCSS
T ss_pred             Cccc---cC--cccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccc--cccccccceeeecccccccc
Confidence            1111   11  1234678888888877655443  77888888899988888777554  45578889999998885544


Q ss_pred             CCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCcc
Q 038405          740 DLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQ  808 (863)
Q Consensus       740 ~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~  808 (863)
                      .++.+..+++|++|+|++|. ++.++...-  .........++|+.|.|.+.+ ++.+......|+++.
T Consensus       234 lp~~l~~l~~L~~L~Ls~N~-i~~i~~~~f--~~~~~~~~~~~L~~L~L~~N~-~~~~~~~~~~f~~~~  298 (305)
T d1xkua_         234 VPGGLADHKYIQVVYLHNNN-ISAIGSNDF--CPPGYNTKKASYSGVSLFSNP-VQYWEIQPSTFRCVY  298 (305)
T ss_dssp             CCTTTTTCSSCCEEECCSSC-CCCCCTTSS--SCSSCCTTSCCCSEEECCSSS-SCGGGSCGGGGTTCC
T ss_pred             cccccccccCCCEEECCCCc-cCccChhhc--cCcchhcccCCCCEEECCCCc-CccCcCCHhHhcccc
Confidence            44567888899999998875 555532110  001123345677788887765 555555555566554

>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=99.75  E-value=3.3e-17  Score=177.81  Aligned_cols=295  Identities=16%  Similarity=0.187  Sum_probs=197.1

Q ss_pred             ccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          500 REDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      ..++.+.+.++.++.+.... +++|++|++++|.++.+++  ++++++|++|++++| .+..++. ++++++|++|++++
T Consensus        44 ~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~--l~~L~~L~~L~L~~n-~i~~i~~-l~~l~~L~~L~~~~  119 (384)
T d2omza2          44 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLFN  119 (384)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCS
T ss_pred             CCCCEEECCCCCCCCccccccCCCCCEEeCcCCcCCCCcc--ccCCccccccccccc-ccccccc-cccccccccccccc
Confidence            46788899988888876554 8999999999999988876  888999999999999 6777765 88999999999988


Q ss_pred             CCccccchhhhcccCccEEecCCCCC-----------------------------------------ccccchhhhcCCC
Q 038405          579 TSIEELPSEIMYLKNLKILLLDGMRH-----------------------------------------FHLIPARVFSSLL  617 (863)
Q Consensus       579 ~~i~~lP~~i~~L~~L~~L~l~~~~~-----------------------------------------l~~lp~~~i~~L~  617 (863)
                      +.+..++... ...++..+....+..                                         ....+.. +..++
T Consensus       120 ~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~  197 (384)
T d2omza2         120 NQITDIDPLK-NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISV-LAKLT  197 (384)
T ss_dssp             SCCCCCGGGT-TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCT
T ss_pred             cccccccccc-ccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccc-ccccc
Confidence            8777654322 222222222211100                                         0011112 55677


Q ss_pred             CCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccc
Q 038405          618 SLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRN  697 (863)
Q Consensus       618 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~  697 (863)
                      +++.+.+++|.+..+.+.  .....++.|....|.+          ..+.    ....+++|+.|++++|......++..
T Consensus       198 ~~~~l~l~~n~i~~~~~~--~~~~~L~~L~l~~n~l----------~~~~----~l~~l~~L~~L~l~~n~l~~~~~~~~  261 (384)
T d2omza2         198 NLESLIATNNQISDITPL--GILTNLDELSLNGNQL----------KDIG----TLASLTNLTDLDLANNQISNLAPLSG  261 (384)
T ss_dssp             TCSEEECCSSCCCCCGGG--GGCTTCCEEECCSSCC----------CCCG----GGGGCTTCSEEECCSSCCCCCGGGTT
T ss_pred             ccceeeccCCccCCCCcc--cccCCCCEEECCCCCC----------CCcc----hhhcccccchhccccCccCCCCcccc
Confidence            888888877665433221  1222333333322222          2221    12345688999999988777667888


Q ss_pred             cCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccC
Q 038405          698 MMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESH  777 (863)
Q Consensus       698 ~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~  777 (863)
                      +++|++|+++++.+.++++    +..++.++.+.+..|. +..++.+..+++++.|++++|.. ..++          ..
T Consensus       262 ~~~L~~L~l~~~~l~~~~~----~~~~~~l~~l~~~~n~-l~~~~~~~~~~~l~~L~ls~n~l-~~l~----------~l  325 (384)
T d2omza2         262 LTKLTELKLGANQISNISP----LAGLTALTNLELNENQ-LEDISPISNLKNLTYLTLYFNNI-SDIS----------PV  325 (384)
T ss_dssp             CTTCSEEECCSSCCCCCGG----GTTCTTCSEEECCSSC-CSCCGGGGGCTTCSEEECCSSCC-SCCG----------GG
T ss_pred             cccCCEeeccCcccCCCCc----cccccccccccccccc-cccccccchhcccCeEECCCCCC-CCCc----------cc
Confidence            8999999999998776643    2367888888888874 45566788889999999988863 3322          24


Q ss_pred             ccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCCCCCCCCCCcceEEEc
Q 038405          778 NYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELPFNFDSAKNSLVSIRG  837 (863)
Q Consensus       778 ~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~  837 (863)
                      ..+++|+.|+++++ +++.++ ....+|+|+.|++++| +++.++. . ....+|+.+..
T Consensus       326 ~~l~~L~~L~L~~n-~l~~l~-~l~~l~~L~~L~l~~N-~l~~l~~-l-~~l~~L~~L~L  380 (384)
T d2omza2         326 SSLTKLQRLFFANN-KVSDVS-SLANLTNINWLSAGHN-QISDLTP-L-ANLTRITQLGL  380 (384)
T ss_dssp             GGCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCBCGG-G-TTCTTCSEEEC
T ss_pred             ccCCCCCEEECCCC-CCCCCh-hHcCCCCCCEEECCCC-cCCCChh-h-ccCCCCCEeeC
Confidence            56889999999887 666665 3455788999999876 5777652 1 12345555543

>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=99.73  E-value=4.1e-17  Score=177.10  Aligned_cols=288  Identities=16%  Similarity=0.212  Sum_probs=199.1

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +.+|++|.++++.++.+..  +..+++|++|++++| .++.+|. ++++++|++|++++|.|..+++ ++++++|+.|++
T Consensus        43 l~~l~~L~l~~~~I~~l~g--l~~L~nL~~L~Ls~N-~l~~l~~-l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~  117 (384)
T d2omza2          43 LDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  117 (384)
T ss_dssp             HTTCCEEECCSSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEEC
T ss_pred             hCCCCEEECCCCCCCCccc--cccCCCCCEEeCcCC-cCCCCcc-ccCCcccccccccccccccccc-cccccccccccc
Confidence            6789999999999988753  788999999999999 8888885 9999999999999999999875 899999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhh------------------------ccCCC--------Cccccchhhh
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIEL------------------------HRMPP--------NQTTILDELE  647 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~------------------------~~~~~--------~~~~~l~~L~  647 (863)
                      +++. ...++.  ......+..+....+.+...                        .....        ..........
T Consensus       118 ~~~~-~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (384)
T d2omza2         118 FNNQ-ITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA  194 (384)
T ss_dssp             CSSC-CCCCGG--GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGG
T ss_pred             cccc-cccccc--ccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccc
Confidence            9887 444443  23344444444333221000                        00000        0000001111


Q ss_pred             hhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCC
Q 038405          648 CLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNL  727 (863)
Q Consensus       648 ~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L  727 (863)
                      .+. .+..+.........+.    ....+++|+.|++++|.......+..+++|+.|++++|.+.++++    +..+++|
T Consensus       195 ~l~-~~~~l~l~~n~i~~~~----~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~----~~~~~~L  265 (384)
T d2omza2         195 KLT-NLESLIATNNQISDIT----PLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP----LSGLTKL  265 (384)
T ss_dssp             GCT-TCSEEECCSSCCCCCG----GGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG----GTTCTTC
T ss_pred             ccc-ccceeeccCCccCCCC----cccccCCCCEEECCCCCCCCcchhhcccccchhccccCccCCCCc----ccccccC
Confidence            112 3333333322222221    123456899999999987766668899999999999999887643    3468999


Q ss_pred             CEEEEecCCCCCCCcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCc
Q 038405          728 HHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSL  807 (863)
Q Consensus       728 ~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L  807 (863)
                      +.|+++++. +..++.+..++.++.+.+.+|.. ..+          .....+++++.|+++++ +++.+.. ...+|+|
T Consensus       266 ~~L~l~~~~-l~~~~~~~~~~~l~~l~~~~n~l-~~~----------~~~~~~~~l~~L~ls~n-~l~~l~~-l~~l~~L  331 (384)
T d2omza2         266 TELKLGANQ-ISNISPLAGLTALTNLELNENQL-EDI----------SPISNLKNLTYLTLYFN-NISDISP-VSSLTKL  331 (384)
T ss_dssp             SEEECCSSC-CCCCGGGTTCTTCSEEECCSSCC-SCC----------GGGGGCTTCSEEECCSS-CCSCCGG-GGGCTTC
T ss_pred             CEeeccCcc-cCCCCcccccccccccccccccc-ccc----------cccchhcccCeEECCCC-CCCCCcc-cccCCCC
Confidence            999999885 45666788899999999988863 222          23466888999999875 5666542 4568899


Q ss_pred             cEEeeccCCCCCCCCCCCCCCCCcceEEEchHhh
Q 038405          808 QNVSVTNCPNLRELPFNFDSAKNSLVSIRGSAEW  841 (863)
Q Consensus       808 ~~L~i~~C~~L~~lp~~~~~~~~~l~~i~~~~~~  841 (863)
                      ++|++++| +|+.+|. . ....+|+.+....+-
T Consensus       332 ~~L~L~~n-~l~~l~~-l-~~l~~L~~L~l~~N~  362 (384)
T d2omza2         332 QRLFFANN-KVSDVSS-L-ANLTNINWLSAGHNQ  362 (384)
T ss_dssp             CEEECCSS-CCCCCGG-G-GGCTTCCEEECCSSC
T ss_pred             CEEECCCC-CCCCChh-H-cCCCCCCEEECCCCc
Confidence            99999988 6887762 2 234677777665443

>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=99.71  E-value=8.7e-18  Score=176.83  Aligned_cols=245  Identities=14%  Similarity=0.085  Sum_probs=135.7

Q ss_pred             CccEEEeeccccc---ccchhhhhcCCCccEEeccCCcCc-cccchhhhcccccceeeccCCCccccc-hhhhcccCccE
Q 038405          522 HLQTLLVRFTVLE---IFPHRFFESMGALKVLDLSYNLDL-TQLPAEMGALINLRCLNLSNTSIEELP-SEIMYLKNLKI  596 (863)
Q Consensus       522 ~Lr~L~l~~~~l~---~l~~~~~~~l~~L~~L~Ls~~~~i-~~lp~~i~~L~~L~~L~L~~~~i~~lP-~~i~~L~~L~~  596 (863)
                      +++.|+++++.+.   .+|.. ++++++|++|+|+++..+ ..+|..|++|++|++|+|++|++..++ ..+.++.+|++
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            4566666666444   34544 567777777777652233 366777777777777777777666543 34666777777


Q ss_pred             EecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccc-hhhhhhcccceeeEEeecCchhhhhhhccccc
Q 038405          597 LLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTIL-DELECLGNQIYEISITLGSASALFKINFSWKL  675 (863)
Q Consensus       597 L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l-~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~  675 (863)
                      +++++|.....+|.. ++++++|+++++++|.+....+........+ ..+....|.+.....     .       ....
T Consensus       130 l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~-----~-------~~~~  196 (313)
T d1ogqa_         130 LDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIP-----P-------TFAN  196 (313)
T ss_dssp             EECCSSEEESCCCGG-GGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECC-----G-------GGGG
T ss_pred             cccccccccccCchh-hccCcccceeecccccccccccccccccccccccccccccccccccc-----c-------cccc
Confidence            777776655566655 6677777777776665432211111011110 111111111111100     0       0011


Q ss_pred             cccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcce
Q 038405          676 CSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQF  752 (863)
Q Consensus       676 ~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~  752 (863)
                      + ....+++..+......+  +..+++|+.+++++|.+....+   .+..+++|+.|++++|.....+ ++++++++|++
T Consensus       197 l-~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~---~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~  272 (313)
T d1ogqa_         197 L-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG---KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHS  272 (313)
T ss_dssp             C-CCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG---GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCE
T ss_pred             c-ccccccccccccccccccccccccccccccccccccccccc---ccccccccccccCccCeecccCChHHhCCCCCCE
Confidence            1 22345555444333332  5667788888888887654433   2345778888888888665333 56788888888


Q ss_pred             EeeccCcchhhhhcccCCccccccCccCcccceecccccccc
Q 038405          753 LSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSL  794 (863)
Q Consensus       753 L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L  794 (863)
                      |+|++|.....+|.          ...+++|+.+.+.+.+.|
T Consensus       273 L~Ls~N~l~g~iP~----------~~~L~~L~~l~l~~N~~l  304 (313)
T d1ogqa_         273 LNVSFNNLCGEIPQ----------GGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             EECCSSEEEEECCC----------STTGGGSCGGGTCSSSEE
T ss_pred             EECcCCcccccCCC----------cccCCCCCHHHhCCCccc
Confidence            88888875444442          234556666666555443

>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=99.71  E-value=7e-17  Score=165.16  Aligned_cols=125  Identities=23%  Similarity=0.240  Sum_probs=99.9

Q ss_pred             ceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          502 DFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       502 ~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      ...++..++.++.+|....+++++|+|++|.+..+|...|..+++|++|+|++| .++.+|. ++.+++|++|+|++|.+
T Consensus        12 ~~~v~C~~~~L~~iP~~lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~-~~~l~~L~~L~Ls~N~l   89 (266)
T d1p9ag_          12 HLEVNCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV-DGTLPVLGTLDLSHNQL   89 (266)
T ss_dssp             CCEEECTTSCCSSCCSCCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC-CSCCTTCCEEECCSSCC
T ss_pred             CeEEEccCCCCCeeCcCcCcCCCEEECcCCcCCCcCHHHhhccccccccccccc-ccccccc-ccccccccccccccccc
Confidence            345666777788888766778889999988888888877888889999999888 7777775 67888899999998888


Q ss_pred             cccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          582 EELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       582 ~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      ...|..+.++++|+.|++++|. ...++...+..+.++++|++.+|.+
T Consensus        90 ~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~l~~L~l~~n~l  136 (266)
T d1p9ag_          90 QSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNEL  136 (266)
T ss_dssp             SSCCCCTTTCTTCCEEECCSSC-CCCCCSSTTTTCTTCCEEECTTSCC
T ss_pred             cccccccccccccccccccccc-cceeecccccccccccccccccccc
Confidence            8888888888888899888887 5555555577888888888876644

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.70  E-value=2.2e-17  Score=173.67  Aligned_cols=245  Identities=17%  Similarity=0.184  Sum_probs=183.0

Q ss_pred             cceEEEeccCCcc---ccCCCC--CCCccEEEeec-cccc-ccchhhhhcCCCccEEeccCCcCccccchhhhcccccce
Q 038405          501 EDFRLSLWGSSIE---YLPETP--CPHLQTLLVRF-TVLE-IFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRC  573 (863)
Q Consensus       501 ~~~~l~l~~~~~~---~l~~~~--~~~Lr~L~l~~-~~l~-~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~  573 (863)
                      +++.+++.++.+.   .+|...  +++|++|++++ |.+. .+|.. +.++++|++|+|++|......|..+..+.+|++
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 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccc-cccccccchhhhccccccccccccccchhhhcc
Confidence            6888999988776   356655  99999999997 5665 67776 889999999999999444456677899999999


Q ss_pred             eeccCCCcc-ccchhhhcccCccEEecCCCCCccccchhhhcCCCCC-ceeeccCcchhhhccCCCCccccchhhhhhcc
Q 038405          574 LNLSNTSIE-ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSL-KVFSLFSTELIELHRMPPNQTTILDELECLGN  651 (863)
Q Consensus       574 L~L~~~~i~-~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L-~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n  651 (863)
                      +++++|.+. .+|..++++++|+++++++|.....+|.. +..+.++ +.+.+..|.+.+..+...         ..+. 
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~~n~l~~~~~~~~---------~~l~-  198 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNRLTGKIPPTF---------ANLN-  198 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCSSEEEEECCGGG---------GGCC-
T ss_pred             cccccccccccCchhhccCcccceeeccccccccccccc-cccccccccccccccccccccccccc---------cccc-
Confidence            999999554 67999999999999999999866688887 7777776 788888877654432211         1111 


Q ss_pred             cceeeEEeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEE
Q 038405          652 QIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHL  730 (863)
Q Consensus       652 ~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L  730 (863)
                         ...+.................++.++.+++.++......+ +..+++|+.|++++|.+++..|.  .+..+++|++|
T Consensus       199 ---~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~--~l~~L~~L~~L  273 (313)
T d1ogqa_         199 ---LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQ--GLTQLKFLHSL  273 (313)
T ss_dssp             ---CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCG--GGGGCTTCCEE
T ss_pred             ---ccccccccccccccccccccccccccccccccccccccccccccccccccccCccCeecccCCh--HHhCCCCCCEE
Confidence               1111111111112223334456789999998887655443 77889999999999998854333  46689999999


Q ss_pred             EEecCCCCCCCcccccCCCcceEeeccCcchh
Q 038405          731 SIRVCPVIRDLTWIREAPNLQFLSLVNCQALS  762 (863)
Q Consensus       731 ~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~l~  762 (863)
                      +|++|.....+|.++.+++|+.+++++|+.+.
T Consensus       274 ~Ls~N~l~g~iP~~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         274 NVSFNNLCGEIPQGGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             ECCSSEEEEECCCSTTGGGSCGGGTCSSSEEE
T ss_pred             ECcCCcccccCCCcccCCCCCHHHhCCCcccc
Confidence            99999765567888889999999999997543

>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=99.67  E-value=8.2e-16  Score=160.85  Aligned_cols=241  Identities=19%  Similarity=0.209  Sum_probs=142.3

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCcccc-chhhhcccCccEEec
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEEL-PSEIMYLKNLKILLL  599 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~l-P~~i~~L~~L~~L~l  599 (863)
                      ..++++-++..++.+|..+   .+.+++|+|++| .++.+|+ .|.++++|++|++++|.+..+ |..+.++++|++|++
T Consensus        11 ~~~~~~C~~~~L~~lP~~l---~~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l   86 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNN-KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL   86 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             cCCEEEecCCCCCccCCCC---CCCCCEEECcCC-cCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecc
Confidence            4566766666788888763   368999999999 8888886 688999999999999998888 456889999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|+ +..+|..   ....|..|.+..|.+..+....         .                           .....+
T Consensus        87 ~~n~-l~~l~~~---~~~~l~~L~~~~n~l~~l~~~~---------~---------------------------~~~~~~  126 (305)
T d1xkua_          87 SKNQ-LKELPEK---MPKTLQELRVHENEITKVRKSV---------F---------------------------NGLNQM  126 (305)
T ss_dssp             CSSC-CSBCCSS---CCTTCCEEECCSSCCCBBCHHH---------H---------------------------TTCTTC
T ss_pred             cCCc-cCcCccc---hhhhhhhhhccccchhhhhhhh---------h---------------------------hccccc
Confidence            9987 7778865   3456777877765433221000         0                           001112


Q ss_pred             cEEEecccCCcccc----cccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEe
Q 038405          680 KRLTIMHNLDSHSI----DLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLS  754 (863)
Q Consensus       680 ~~L~l~~~~~~~~~----~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~  754 (863)
                      ..+....+......    .+..+++|+.+++++|.+..++..     .+++|+.|++.+|...... ..+..++.+++|+
T Consensus       127 ~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~-----~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~  201 (305)
T d1xkua_         127 IVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQG-----LPPSLTELHLDGNKITKVDAASLKGLNNLAKLG  201 (305)
T ss_dssp             CEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSS-----CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEE
T ss_pred             cccccccccccccCCCccccccccccCccccccCCccccCcc-----cCCccCEEECCCCcCCCCChhHhhccccccccc
Confidence            22222222211111    144455566666666555444321     2455666666655443332 3355556666666


Q ss_pred             eccCcchhhhhcccCCccccccCccCcccceecccccccccccccCccCCCCccEEeeccCCCCCCCC
Q 038405          755 LVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVTNCPNLRELP  822 (863)
Q Consensus       755 L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~~C~~L~~lp  822 (863)
                      +++|.. ..++.        ....++++|+.|+|+++ +++.++.+...+++|+.|+++++ +|+.++
T Consensus       202 ~s~n~l-~~~~~--------~~~~~l~~L~~L~L~~N-~L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~  258 (305)
T d1xkua_         202 LSFNSI-SAVDN--------GSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIG  258 (305)
T ss_dssp             CCSSCC-CEECT--------TTGGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCC
T ss_pred             cccccc-ccccc--------ccccccccceeeecccc-cccccccccccccCCCEEECCCC-ccCccC
Confidence            655542 22211        12334556666666655 45555544445566666666664 455554

>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=99.65  E-value=1.5e-15  Score=157.00  Aligned_cols=216  Identities=19%  Similarity=0.214  Sum_probs=164.1

Q ss_pred             EEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCC-Ccc
Q 038405          505 LSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNT-SIE  582 (863)
Q Consensus       505 l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~-~i~  582 (863)
                      +...+..++.+|....+++++|++++|.++.+|...|.++++|++|+++++ .+..++ ..+.++..++.+....+ .+.
T Consensus        16 v~c~~~~L~~iP~~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~~~~~   94 (284)
T d1ozna_          16 TSCPQQGLQAVPVGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLR   94 (284)
T ss_dssp             EECCSSCCSSCCTTCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCC
T ss_pred             EEcCCCCCCccCCCCCCCCCEEECcCCcCCCCCHHHhhccccccccccccc-cccccccccccccccccccccccccccc
Confidence            445566677888766778899999999999999888899999999999988 555544 45567888888877644 777


Q ss_pred             cc-chhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeec
Q 038405          583 EL-PSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLG  661 (863)
Q Consensus       583 ~l-P~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~  661 (863)
                      .+ |..+.++++|++|++++|. ...++...++.+.+|+.+++.+|.+..+....                         
T Consensus        95 ~l~~~~~~~l~~L~~L~l~~n~-~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~-------------------------  148 (284)
T d1ozna_          95 SVDPATFHGLGRLHTLHLDRCG-LQELGPGLFRGLAALQYLYLQDNALQALPDDT-------------------------  148 (284)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT-------------------------
T ss_pred             cccchhhcccccCCEEecCCcc-cccccccccchhcccchhhhccccccccChhH-------------------------
Confidence            77 4458889999999999987 55555555788889999999887654332111                         


Q ss_pred             CchhhhhhhccccccccccEEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCC
Q 038405          662 SASALFKINFSWKLCSCIKRLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIR  739 (863)
Q Consensus       662 ~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~  739 (863)
                                 ...+++|+.|++++|......+  +.++++|+.+++++|.+..+.+.  .+..+++|+.|++++|....
T Consensus       149 -----------f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~--~f~~l~~L~~L~l~~N~i~~  215 (284)
T d1ozna_         149 -----------FRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPH--AFRDLGRLMTLYLFANNLSA  215 (284)
T ss_dssp             -----------TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTT--TTTTCTTCCEEECCSSCCSC
T ss_pred             -----------hccccchhhcccccCcccccchhhhccccccchhhhhhccccccChh--Hhhhhhhccccccccccccc
Confidence                       1223467788888887655443  78889999999999998887654  56788999999999997655


Q ss_pred             CC-cccccCCCcceEeeccCcc
Q 038405          740 DL-TWIREAPNLQFLSLVNCQA  760 (863)
Q Consensus       740 ~l-~~l~~l~~L~~L~L~~~~~  760 (863)
                      .. ..++.+++|++|+|++|+.
T Consensus       216 ~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         216 LPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             CCHHHHTTCTTCCEEECCSSCE
T ss_pred             ccccccccccccCEEEecCCCC
Confidence            44 3578899999999998763

>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=99.59  E-value=2.4e-15  Score=149.66  Aligned_cols=80  Identities=25%  Similarity=0.326  Sum_probs=43.3

Q ss_pred             hcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCce
Q 038405          542 ESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKV  621 (863)
Q Consensus       542 ~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~  621 (863)
                      ..+.+|+.|++.+| .++.++ .+.++++|++|++++|.|..+++ +.++++|++|++++|. ...++.  +.++++|+.
T Consensus        38 ~~l~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n~-~~~i~~--l~~l~~L~~  111 (227)
T d1h6ua2          38 ADLDGITTLSAFGT-GVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNP-LKNVSA--IAGLQSIKT  111 (227)
T ss_dssp             HHHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCC-CSCCGG--GTTCTTCCE
T ss_pred             HHcCCcCEEECCCC-CCCcch-hHhcCCCCcEeecCCceeecccc-cccccccccccccccc-cccccc--ccccccccc
Confidence            34455555566555 455553 35555666666666655555542 5555566666665554 334432  455556666


Q ss_pred             eeccCc
Q 038405          622 FSLFST  627 (863)
Q Consensus       622 L~l~~~  627 (863)
                      +.+.++
T Consensus       112 l~l~~~  117 (227)
T d1h6ua2         112 LDLTST  117 (227)
T ss_dssp             EECTTS
T ss_pred             cccccc
Confidence            555543

>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=99.58  E-value=8.5e-15  Score=145.60  Aligned_cols=202  Identities=19%  Similarity=0.235  Sum_probs=123.8

Q ss_pred             EEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCcc
Q 038405          504 RLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIE  582 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~  582 (863)
                      ++.+..+.+....... +.+|+.|.+.+|.++.++.  +..+++|++|++++| .+..++. +..+++|++|++++|.++
T Consensus        23 ~~~l~~~~~~d~~~~~~l~~L~~L~l~~~~i~~l~~--l~~l~~L~~L~ls~n-~i~~~~~-l~~l~~l~~l~~~~n~~~   98 (227)
T d1h6ua2          23 KIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLK   98 (227)
T ss_dssp             HHHTTCSSTTSEECHHHHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCCSCCEEECCSCCCS
T ss_pred             HHHhCCCCcCCcCCHHHcCCcCEEECCCCCCCcchh--HhcCCCCcEeecCCc-eeecccc-cccccccccccccccccc
Confidence            3344444444333222 6788888888888887753  778888999999888 6666654 788888888888888888


Q ss_pred             ccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecC
Q 038405          583 ELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGS  662 (863)
Q Consensus       583 ~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~  662 (863)
                      .++ .+..+++|+.+++++|.. ..++.  +...+.+..+.+.++.+....                             
T Consensus        99 ~i~-~l~~l~~L~~l~l~~~~~-~~~~~--~~~~~~~~~l~~~~~~~~~~~-----------------------------  145 (227)
T d1h6ua2          99 NVS-AIAGLQSIKTLDLTSTQI-TDVTP--LAGLSNLQVLYLDLNQITNIS-----------------------------  145 (227)
T ss_dssp             CCG-GGTTCTTCCEEECTTSCC-CCCGG--GTTCTTCCEEECCSSCCCCCG-----------------------------
T ss_pred             ccc-cccccccccccccccccc-cccch--hccccchhhhhchhhhhchhh-----------------------------
Confidence            776 477888888888888763 33332  556667777766543221000                             


Q ss_pred             chhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCc
Q 038405          663 ASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLT  742 (863)
Q Consensus       663 ~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~  742 (863)
                               ....+++|+.|++.+|......++.++++|++|++++|.++++++    +..+++|++|+|++| .++.++
T Consensus       146 ---------~~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~Ls~n~l~~l~~----l~~l~~L~~L~Ls~N-~lt~i~  211 (227)
T d1h6ua2         146 ---------PLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP----LASLPNLIEVHLKNN-QISDVS  211 (227)
T ss_dssp             ---------GGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG----GGGCTTCCEEECTTS-CCCBCG
T ss_pred             ---------hhccccccccccccccccccchhhcccccceecccCCCccCCChh----hcCCCCCCEEECcCC-cCCCCc
Confidence                     001123455555555554444445556666666666665554432    234556666666665 344455


Q ss_pred             ccccCCCcceEeec
Q 038405          743 WIREAPNLQFLSLV  756 (863)
Q Consensus       743 ~l~~l~~L~~L~L~  756 (863)
                      .++.+++|+.|+|+
T Consensus       212 ~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         212 PLANTSNLFIVTLT  225 (227)
T ss_dssp             GGTTCTTCCEEEEE
T ss_pred             ccccCCCCCEEEee
Confidence            55566666666554

>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=99.57  E-value=1.4e-14  Score=149.56  Aligned_cols=214  Identities=19%  Similarity=0.172  Sum_probs=161.7

Q ss_pred             EEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccchh-hhcccCccEEecCCCC
Q 038405          526 LLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMR  603 (863)
Q Consensus       526 L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~  603 (863)
                      +..+++.++.+|..+   .+.+++|+|++| .++.+|. .|.++++|++|++++|.+..++.. +..+..+++++...+.
T Consensus        16 v~c~~~~L~~iP~~i---p~~~~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~   91 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI---PAASQRIFLHGN-RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA   91 (284)
T ss_dssp             EECCSSCCSSCCTTC---CTTCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCT
T ss_pred             EEcCCCCCCccCCCC---CCCCCEEECcCC-cCCCCCHHHhhcccccccccccccccccccccccccccccccccccccc
Confidence            345556788888753   257899999999 7888875 689999999999999999988665 6678899999888777


Q ss_pred             CccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEE
Q 038405          604 HFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLT  683 (863)
Q Consensus       604 ~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~  683 (863)
                      .+..++...+.++++|++|++.+|.+..+....                                    .....+|+.++
T Consensus        92 ~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~------------------------------------~~~~~~L~~l~  135 (284)
T d1ozna_          92 QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGL------------------------------------FRGLAALQYLY  135 (284)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTT------------------------------------TTTCTTCCEEE
T ss_pred             ccccccchhhcccccCCEEecCCcccccccccc------------------------------------cchhcccchhh
Confidence            788887777999999999999887543221111                                    11234677788


Q ss_pred             ecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCC-cccccCCCcceEeeccCcc
Q 038405          684 IMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDL-TWIREAPNLQFLSLVNCQA  760 (863)
Q Consensus       684 l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l-~~l~~l~~L~~L~L~~~~~  760 (863)
                      +.+|......+  +..+++|++|++++|.+..+++.  .+..+++|+.+++.+|...... ..+..+++|++|++++|..
T Consensus       136 l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~--~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i  213 (284)
T d1ozna_         136 LQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPER--AFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL  213 (284)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTT--TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             hccccccccChhHhccccchhhcccccCcccccchh--hhccccccchhhhhhccccccChhHhhhhhhccccccccccc
Confidence            88887765543  77888999999999998887664  5667899999999998655433 4588899999999999875


Q ss_pred             hhhhhcccCCccccccCccCcccceecccc
Q 038405          761 LSEIIESAGSSEVAESHNYFAYLMVIDLDS  790 (863)
Q Consensus       761 l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~  790 (863)
                      .. ++.        .....+++|+.|.|++
T Consensus       214 ~~-~~~--------~~~~~~~~L~~L~l~~  234 (284)
T d1ozna_         214 SA-LPT--------EALAPLRALQYLRLND  234 (284)
T ss_dssp             SC-CCH--------HHHTTCTTCCEEECCS
T ss_pred             cc-ccc--------cccccccccCEEEecC
Confidence            33 221        2344577788888775

>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=99.56  E-value=1.5e-14  Score=147.56  Aligned_cols=193  Identities=19%  Similarity=0.108  Sum_probs=146.1

Q ss_pred             CccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCCCccccchhhhcccCccEEecC
Q 038405          522 HLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD  600 (863)
Q Consensus       522 ~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~  600 (863)
                      .+...+.+++.++.+|+.+   .++|++|+|++| .+..+| ..|.++++|++|+|++|.|+.+|. ++.+++|++|+++
T Consensus        11 ~~~~v~C~~~~L~~iP~~l---p~~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls   85 (266)
T d1p9ag_          11 SHLEVNCDKRNLTALPPDL---PKDTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLS   85 (266)
T ss_dssp             TCCEEECTTSCCSSCCSCC---CTTCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECC
T ss_pred             CCeEEEccCCCCCeeCcCc---CcCCCEEECcCC-cCCCcCHHHhhcccccccccccccccccccc-ccccccccccccc
Confidence            4445577777888888763   257999999999 788777 468899999999999999999875 5789999999999


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccccc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK  680 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~  680 (863)
                      +|. +...|.. +.++++|+.|+++++.+..+....                                    ...+.++.
T Consensus        86 ~N~-l~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~------------------------------------~~~l~~l~  127 (266)
T d1p9ag_          86 HNQ-LQSLPLL-GQTLPALTVLDVSFNRLTSLPLGA------------------------------------LRGLGELQ  127 (266)
T ss_dssp             SSC-CSSCCCC-TTTCTTCCEEECCSSCCCCCCSST------------------------------------TTTCTTCC
T ss_pred             ccc-ccccccc-cccccccccccccccccceeeccc------------------------------------cccccccc
Confidence            997 6666665 889999999999876543321111                                    11234677


Q ss_pred             EEEecccCCccccc--ccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccC
Q 038405          681 RLTIMHNLDSHSID--LRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNC  758 (863)
Q Consensus       681 ~L~l~~~~~~~~~~--l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~  758 (863)
                      .|.+++|......+  +..+++|+.|++++|.++.+++.  .+..+++|++|+|++|.....++.+..+++|+.|+|++|
T Consensus       128 ~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~--~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAG--LLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTT--TTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSC
T ss_pred             cccccccccceeccccccccccchhcccccccccccCcc--ccccccccceeecccCCCcccChhHCCCCCCCEEEecCC
Confidence            78887776655443  67788899999999988877654  456788999999999864433345777889999999887


Q ss_pred             c
Q 038405          759 Q  759 (863)
Q Consensus       759 ~  759 (863)
                      +
T Consensus       206 p  206 (266)
T d1p9ag_         206 P  206 (266)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.54  E-value=2.6e-14  Score=139.90  Aligned_cols=165  Identities=21%  Similarity=0.304  Sum_probs=84.4

Q ss_pred             CCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceee
Q 038405          544 MGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS  623 (863)
Q Consensus       544 l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~  623 (863)
                      +..|+.|++++| .++.++. +..+++|++|++++|.|+.+|. ++++++|++|++++|. +..+|.  +..+++|+.|+
T Consensus        45 L~~L~~L~l~~~-~i~~l~~-l~~l~~L~~L~L~~n~i~~l~~-~~~l~~L~~L~l~~n~-i~~l~~--l~~l~~L~~L~  118 (210)
T d1h6ta2          45 LNSIDQIIANNS-DIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENK-VKDLSS--LKDLKKLKSLS  118 (210)
T ss_dssp             HHTCCEEECTTS-CCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCGGG--GTTCTTCCEEE
T ss_pred             hcCccEEECcCC-CCCCchh-HhhCCCCCEEeCCCccccCccc-cccCcccccccccccc-cccccc--ccccccccccc
Confidence            344555555555 4444432 4455555555555555555442 4455555555555554 444442  44555555555


Q ss_pred             ccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcce
Q 038405          624 LFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLET  703 (863)
Q Consensus       624 l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~  703 (863)
                      +.+|....           +..+                           ..++.++.+++++|.......+..+++|+.
T Consensus       119 l~~~~~~~-----------~~~l---------------------------~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~  160 (210)
T d1h6ta2         119 LEHNGISD-----------INGL---------------------------VHLPQLESLYLGNNKITDITVLSRLTKLDT  160 (210)
T ss_dssp             CTTSCCCC-----------CGGG---------------------------GGCTTCCEEECCSSCCCCCGGGGGCTTCSE
T ss_pred             cccccccc-----------cccc---------------------------cccccccccccccccccccccccccccccc
Confidence            54432110           0000                           011233344444443332223455667777


Q ss_pred             eEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeecc
Q 038405          704 LNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVN  757 (863)
Q Consensus       704 L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~  757 (863)
                      +++++|.+.++++    +..+++|+.|++++|. ++.++.+..+++|++|+|++
T Consensus       161 l~l~~n~l~~i~~----l~~l~~L~~L~Ls~N~-i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         161 LSLEDNQISDIVP----LAGLTKLQNLYLSKNH-ISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             EECCSSCCCCCGG----GTTCTTCCEEECCSSC-CCBCGGGTTCTTCSEEEEEE
T ss_pred             ccccccccccccc----ccCCCCCCEEECCCCC-CCCChhhcCCCCCCEEEccC
Confidence            7777777665432    3356777777777773 45566677777777777753

>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=99.53  E-value=3e-14  Score=138.12  Aligned_cols=162  Identities=20%  Similarity=0.337  Sum_probs=78.7

Q ss_pred             cCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCcee
Q 038405          543 SMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVF  622 (863)
Q Consensus       543 ~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L  622 (863)
                      .+.+|++|+++++ .+..++ .+..+++|++|++++|.++.++. ++++++|++|++++|. ...+|.  +.++++|++|
T Consensus        38 ~l~~l~~L~l~~~-~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L  111 (199)
T d2omxa2          38 DLDQVTTLQADRL-GIKSID-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCSEE
T ss_pred             HhcCCCEEECCCC-CCCCcc-ccccCCCcCcCccccccccCccc-ccCCcccccccccccc-cccccc--cccccccccc
Confidence            3445555555555 444443 25555555555555555555543 5555555555555554 333332  4555555555


Q ss_pred             eccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccccEEEecccCCcccccccccCCcc
Q 038405          623 SLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLE  702 (863)
Q Consensus       623 ~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~  702 (863)
                      ++++|......           .                           ...+++|+.|++++|.......+..+++|+
T Consensus       112 ~l~~~~~~~~~-----------~---------------------------~~~l~~L~~L~l~~n~l~~~~~l~~~~~L~  153 (199)
T d2omxa2         112 TLFNNQITDID-----------P---------------------------LKNLTNLNRLELSSNTISDISALSGLTSLQ  153 (199)
T ss_dssp             ECCSSCCCCCG-----------G---------------------------GTTCTTCSEEECCSSCCCCCGGGTTCTTCS
T ss_pred             ccccccccccc-----------c---------------------------cchhhhhHHhhhhhhhhccccccccccccc
Confidence            55443211000           0                           001123334444444332222244555666


Q ss_pred             eeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceE
Q 038405          703 TLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFL  753 (863)
Q Consensus       703 ~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L  753 (863)
                      .|++.+|.++++++    +..+++|+.|++++|+ +++++.++.+++|+.|
T Consensus       154 ~L~l~~n~l~~l~~----l~~l~~L~~L~ls~N~-i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         154 QLNFSSNQVTDLKP----LANLTTLERLDISSNK-VSDISVLAKLTNLESL  199 (199)
T ss_dssp             EEECCSSCCCCCGG----GTTCTTCCEEECCSSC-CCCCGGGGGCTTCSEE
T ss_pred             ccccccccccCCcc----ccCCCCCCEEECCCCC-CCCCccccCCCCCCcC
Confidence            66666665554432    2345666666666663 4445555566666554

>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=99.53  E-value=2.5e-13  Score=144.68  Aligned_cols=279  Identities=22%  Similarity=0.218  Sum_probs=158.1

Q ss_pred             cceEEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCC
Q 038405          501 EDFRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~  580 (863)
                      .+++|++.++.++.+|.. +++|++|++++|.++.+|..    +.+|+.|++++| .++.++. +  ...|++|++++|.
T Consensus        39 ~l~~LdLs~~~L~~lp~~-~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n-~l~~l~~-l--p~~L~~L~L~~n~  109 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL-PPHLESLVASCNSLTELPEL----PQSLKSLLVDNN-NLKALSD-L--PPLLEYLGVSNNQ  109 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC-CTTCSEEECCSSCCSSCCCC----CTTCCEEECCSS-CCSCCCS-C--CTTCCEEECCSSC
T ss_pred             CCCEEEeCCCCCCCCCCC-CCCCCEEECCCCCCcccccc----hhhhhhhhhhhc-ccchhhh-h--ccccccccccccc
Confidence            466788888888888753 67899999999888888753    467888888888 6666653 1  1358899999999


Q ss_pred             ccccchhhhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEee
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITL  660 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~  660 (863)
                      +..+|. ++++++|++|++++|. +...|..    ...+..+.+..+.....  ........++.+....+.....+...
T Consensus       110 l~~lp~-~~~l~~L~~L~l~~~~-~~~~~~~----~~~l~~l~~~~~~~~~~--~~l~~l~~l~~L~l~~n~~~~~~~~~  181 (353)
T d1jl5a_         110 LEKLPE-LQNSSFLKIIDVDNNS-LKKLPDL----PPSLEFIAAGNNQLEEL--PELQNLPFLTAIYADNNSLKKLPDLP  181 (353)
T ss_dssp             CSSCCC-CTTCTTCCEEECCSSC-CSCCCCC----CTTCCEEECCSSCCSSC--CCCTTCTTCCEEECCSSCCSSCCCCC
T ss_pred             cccccc-hhhhccceeecccccc-ccccccc----cccccchhhcccccccc--ccccccccceeccccccccccccccc
Confidence            988885 6788999999998876 4444432    23344444433221110  00011111222221111111100000


Q ss_pred             -------cCchhhhhhhccccccccccEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEe
Q 038405          661 -------GSASALFKINFSWKLCSCIKRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIR  733 (863)
Q Consensus       661 -------~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~  733 (863)
                             .....+..+ .....++.++.+++++|......  ....++..+.+.++.+...+.      ..+++..+.+.
T Consensus       182 ~~~~~l~~~~~~~~~~-~~~~~l~~L~~l~l~~n~~~~~~--~~~~~l~~~~~~~~~~~~~~~------~~~~l~~~~~~  252 (353)
T d1jl5a_         182 LSLESIVAGNNILEEL-PELQNLPFLTTIYADNNLLKTLP--DLPPSLEALNVRDNYLTDLPE------LPQSLTFLDVS  252 (353)
T ss_dssp             TTCCEEECCSSCCSSC-CCCTTCTTCCEEECCSSCCSSCC--SCCTTCCEEECCSSCCSCCCC------CCTTCCEEECC
T ss_pred             cccccccccccccccc-ccccccccccccccccccccccc--ccccccccccccccccccccc------ccccccccccc
Confidence                   000000001 11223456677777666543322  223455566665555433221      12223333332


Q ss_pred             cCCCC----------------CCCc-ccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceecccccccccc
Q 038405          734 VCPVI----------------RDLT-WIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSLPSLKR  796 (863)
Q Consensus       734 ~~~~~----------------~~l~-~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~  796 (863)
                      .+...                ..++ ....+|+|++|+|++|. +..+|            ..+++|+.|+++++ ++++
T Consensus       253 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N~-l~~lp------------~~~~~L~~L~L~~N-~L~~  318 (353)
T d1jl5a_         253 ENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK-LIELP------------ALPPRLERLIASFN-HLAE  318 (353)
T ss_dssp             SSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSC-CSCCC------------CCCTTCCEEECCSS-CCSC
T ss_pred             cccccccccccchhcccccccCccccccccCCCCCEEECCCCc-cCccc------------cccCCCCEEECCCC-cCCc
Confidence            22110                0011 12346899999999986 44443            24789999999876 5777


Q ss_pred             cccCccCCCCccEEeeccCCCCCCCCC
Q 038405          797 ICHGTMPFPSLQNVSVTNCPNLRELPF  823 (863)
Q Consensus       797 l~~~~~~~~~L~~L~i~~C~~L~~lp~  823 (863)
                      ++.   .+++|++|++++|+ |+++|.
T Consensus       319 l~~---~~~~L~~L~L~~N~-L~~lp~  341 (353)
T d1jl5a_         319 VPE---LPQNLKQLHVEYNP-LREFPD  341 (353)
T ss_dssp             CCC---CCTTCCEEECCSSC-CSSCCC
T ss_pred             ccc---ccCCCCEEECcCCc-CCCCCc
Confidence            753   35789999999986 999985

>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=99.51  E-value=5.3e-14  Score=136.36  Aligned_cols=161  Identities=21%  Similarity=0.275  Sum_probs=123.1

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      ++++++|.+.+|.+..++.  ++.+++|++|++++| .+..++. ++++++|++|++++|.+..+|. +.++++|++|++
T Consensus        39 l~~l~~L~l~~~~i~~l~~--l~~l~nL~~L~Ls~N-~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l  113 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  113 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEC
T ss_pred             hcCCCEEECCCCCCCCccc--cccCCCcCcCccccc-cccCccc-ccCCcccccccccccccccccc-cccccccccccc
Confidence            6788889998888877754  778899999999998 7777765 8899999999999998888874 888999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. ...++.  +.++++|+.|++++|.+..+           ..+                           ..++++
T Consensus       114 ~~~~-~~~~~~--~~~l~~L~~L~l~~n~l~~~-----------~~l---------------------------~~~~~L  152 (199)
T d2omxa2         114 FNNQ-ITDIDP--LKNLTNLNRLELSSNTISDI-----------SAL---------------------------SGLTSL  152 (199)
T ss_dssp             CSSC-CCCCGG--GTTCTTCSEEECCSSCCCCC-----------GGG---------------------------TTCTTC
T ss_pred             cccc-cccccc--cchhhhhHHhhhhhhhhccc-----------ccc---------------------------cccccc
Confidence            8887 344432  77889999999987643211           000                           123467


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEE
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHL  730 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L  730 (863)
                      +.|++.+|......++.++++|++|++++|.+++++.    +..+++|+.|
T Consensus       153 ~~L~l~~n~l~~l~~l~~l~~L~~L~ls~N~i~~i~~----l~~L~~L~~L  199 (199)
T d2omxa2         153 QQLNFSSNQVTDLKPLANLTTLERLDISSNKVSDISV----LAKLTNLESL  199 (199)
T ss_dssp             SEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG----GGGCTTCSEE
T ss_pred             cccccccccccCCccccCCCCCCEEECCCCCCCCCcc----ccCCCCCCcC
Confidence            7788888776665568889999999999998887643    3467888775

>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=99.51  E-value=1e-13  Score=135.56  Aligned_cols=165  Identities=18%  Similarity=0.240  Sum_probs=121.3

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +.+|+.|.+.+|.++.++.  +..+++|++|++++| .++.++. ++.+++|++|++++|+|+.+| .+.++++|+.|++
T Consensus        45 L~~L~~L~l~~~~i~~l~~--l~~l~~L~~L~L~~n-~i~~l~~-~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l  119 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGN-KLTDIKP-LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEEC
T ss_pred             hcCccEEECcCCCCCCchh--HhhCCCCCEEeCCCc-cccCccc-cccCccccccccccccccccc-ccccccccccccc
Confidence            4567777777777776654  677888888888888 6777764 678888888888888888887 4788888888888


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhccccccccc
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCI  679 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L  679 (863)
                      ++|. ...++.  +.++++|+.+++.+|.+....           .                           ...+++|
T Consensus       120 ~~~~-~~~~~~--l~~l~~l~~l~~~~n~l~~~~-----------~---------------------------~~~l~~L  158 (210)
T d1h6ta2         120 EHNG-ISDING--LVHLPQLESLYLGNNKITDIT-----------V---------------------------LSRLTKL  158 (210)
T ss_dssp             TTSC-CCCCGG--GGGCTTCCEEECCSSCCCCCG-----------G---------------------------GGGCTTC
T ss_pred             cccc-cccccc--ccccccccccccccccccccc-----------c---------------------------ccccccc
Confidence            8886 444543  677888888888765432110           0                           0123467


Q ss_pred             cEEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEec
Q 038405          680 KRLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRV  734 (863)
Q Consensus       680 ~~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~  734 (863)
                      +.+++++|......++.++++|++|++++|.+++++.    +..+++|+.|+|++
T Consensus       159 ~~l~l~~n~l~~i~~l~~l~~L~~L~Ls~N~i~~l~~----l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         159 DTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRA----LAGLKNLDVLELFS  209 (210)
T ss_dssp             SEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCGG----GTTCTTCSEEEEEE
T ss_pred             cccccccccccccccccCCCCCCEEECCCCCCCCChh----hcCCCCCCEEEccC
Confidence            7788888776665568888999999999998887643    45789999999875

>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=99.44  E-value=4.8e-13  Score=134.24  Aligned_cols=199  Identities=11%  Similarity=0.115  Sum_probs=99.6

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccc-cch-hhhcccCccEEecC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEE-LPS-EIMYLKNLKILLLD  600 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~-lP~-~i~~L~~L~~L~l~  600 (863)
                      +++..+++.++.+|..++   +++++|++++| .+..+|. .|.++++|++|++++|.+.. +|. .+..++++++|.+.
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~~~   86 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP---RNAIELRFVLT-KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC---SCCSEEEEESC-CCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CEEEEeCCCCCCcCCCCC---CCCCEEECcCC-cCCccChhHhhccchhhhhhhccccccceeecccccccccccccccc
Confidence            344444444555554321   34555555555 4555544 34555555555555554443 222 24555666666555


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccccc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK  680 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~  680 (863)
                      .+..+..++.+.+.++++|++|++.+|.+.......  ....          ++                       .+.
T Consensus        87 ~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~--~~~~----------l~-----------------------~l~  131 (242)
T d1xwdc1          87 KANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVH--KIHS----------LQ-----------------------KVL  131 (242)
T ss_dssp             CCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCT--TTCB----------SS-----------------------CEE
T ss_pred             ccccccccccccccccccccccccchhhhccccccc--cccc----------cc-----------------------ccc
Confidence            443344455444566666666666554432211100  0000          00                       111


Q ss_pred             EEEecccCCcccc--ccccc-CCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcc--cccCCCcceEee
Q 038405          681 RLTIMHNLDSHSI--DLRNM-MHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTW--IREAPNLQFLSL  755 (863)
Q Consensus       681 ~L~l~~~~~~~~~--~l~~~-~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~--l~~l~~L~~L~L  755 (863)
                      .+...++......  .+..+ ..++.|+++++.++.++..   .....++..+....+..++.++.  +.++++|++|+|
T Consensus       132 ~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~---~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~L  208 (242)
T d1xwdc1         132 LDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNC---AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDI  208 (242)
T ss_dssp             EEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTT---TTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEEC
T ss_pred             cccccccccccccccccccccccceeeecccccccccccc---cccchhhhccccccccccccccHHHhcCCCCCCEEEC
Confidence            1111111111111  12333 4788889988888877553   12345666665555556666543  788899999999


Q ss_pred             ccCcchhhhh
Q 038405          756 VNCQALSEII  765 (863)
Q Consensus       756 ~~~~~l~~i~  765 (863)
                      ++|. ++.++
T Consensus       209 s~N~-l~~l~  217 (242)
T d1xwdc1         209 SRTR-IHSLP  217 (242)
T ss_dssp             TTSC-CCCCC
T ss_pred             CCCc-CCccC
Confidence            8886 44443

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=4.7e-13  Score=134.25  Aligned_cols=213  Identities=18%  Similarity=0.145  Sum_probs=143.0

Q ss_pred             EEEeccCCccccCCCCCCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccc-hhhhcccccceeeccCC-Cc
Q 038405          504 RLSLWGSSIEYLPETPCPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLP-AEMGALINLRCLNLSNT-SI  581 (863)
Q Consensus       504 ~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp-~~i~~L~~L~~L~L~~~-~i  581 (863)
                      .+...+..++.+|....+++++|++++|.+..+|...|.++++|++|++++|.....+| ..+.+++++++|.+..+ .+
T Consensus        12 ~i~c~~~~l~~iP~~l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l   91 (242)
T d1xwdc1          12 VFLCQESKVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL   91 (242)
T ss_dssp             EEEEESCSCSSCCSCSCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTC
T ss_pred             EEEEeCCCCCCcCCCCCCCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccc
Confidence            45666677888887777899999999999999999889999999999999994444443 35788999999998764 77


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceee---ccCcchhhhccCCCCccccchhhhhhcccceeeE
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFS---LFSTELIELHRMPPNQTTILDELECLGNQIYEIS  657 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~---l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~  657 (863)
                      ..++.. +.++++|++|++++|. +...|.  ...+.+++.+.   ..++.+..+....+                    
T Consensus        92 ~~~~~~~~~~l~~L~~l~l~~~~-l~~~~~--~~~~~~l~~l~~~~~~n~~l~~i~~~~~--------------------  148 (242)
T d1xwdc1          92 LYINPEAFQNLPNLQYLLISNTG-IKHLPD--VHKIHSLQKVLLDIQDNINIHTIERNSF--------------------  148 (242)
T ss_dssp             CEECTTSEECCTTCCEEEEESCC-CCSCCC--CTTTCBSSCEEEEEESCTTCCEECTTSS--------------------
T ss_pred             cccccccccccccccccccchhh-hccccc--cccccccccccccccccccccccccccc--------------------
Confidence            766544 7899999999999987 555543  34445555443   33322221111110                    


Q ss_pred             EeecCchhhhhhhccccccccccEEEecccCCccccc-ccccCCcceeE-eccCcccccCCCCCCCCCCCCCCEEEEecC
Q 038405          658 ITLGSASALFKINFSWKLCSCIKRLTIMHNLDSHSID-LRNMMHLETLN-IVECSLERVDPTFNGWTNFHNLHHLSIRVC  735 (863)
Q Consensus       658 ~~~~~~~~l~~l~~~~~~~~~L~~L~l~~~~~~~~~~-l~~~~~L~~L~-l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~  735 (863)
                                     .+....+..|++.+|....... ....+++.++. +++|.++.++..  .+..+++|+.|+|++|
T Consensus       149 ---------------~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~--~f~~l~~L~~L~Ls~N  211 (242)
T d1xwdc1         149 ---------------VGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPND--VFHGASGPVILDISRT  211 (242)
T ss_dssp             ---------------TTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTTCCCCCTT--TTTTSCCCSEEECTTS
T ss_pred             ---------------ccccccceeeecccccccccccccccchhhhccccccccccccccHH--HhcCCCCCCEEECCCC
Confidence                           0011245566666665543332 33345555554 566678887654  4668999999999999


Q ss_pred             CCCCCCc--ccccCCCcceEeecc
Q 038405          736 PVIRDLT--WIREAPNLQFLSLVN  757 (863)
Q Consensus       736 ~~~~~l~--~l~~l~~L~~L~L~~  757 (863)
                      +. +.++  .+.++++|+.|++.+
T Consensus       212 ~l-~~l~~~~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         212 RI-HSLPSYGLENLKKLRARSTYN  234 (242)
T ss_dssp             CC-CCCCSSSCTTCCEEESSSEES
T ss_pred             cC-CccCHHHHcCCcccccCcCCC
Confidence            64 4443  356666666665543

>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=99.40  E-value=1.7e-13  Score=140.74  Aligned_cols=61  Identities=18%  Similarity=0.202  Sum_probs=32.4

Q ss_pred             CCCCCCEEEEecCCCCCC--CcccccCCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          723 NFHNLHHLSIRVCPVIRD--LTWIREAPNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       723 ~l~~L~~L~L~~~~~~~~--l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      .+++|++|++++|..+++  +..+.++|+|++|+|++|..+..-.        ......+|+|+.|++.+|
T Consensus       173 ~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~--------l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         173 RCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPET--------LLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             HCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGG--------GGGGGGCTTCCEEECTTS
T ss_pred             ccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHH--------HHHHhcCCCCCEEeeeCC
Confidence            355666666666655442  2445566666666666665443210        012334566666666655

>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=99.38  E-value=6.7e-12  Score=133.31  Aligned_cols=267  Identities=18%  Similarity=0.131  Sum_probs=161.2

Q ss_pred             CCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecC
Q 038405          521 PHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLD  600 (863)
Q Consensus       521 ~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~  600 (863)
                      .++++|+++++.++.+|+    .+++|++|++++| .++.+|..+   .+|+.|++++|.++.++.-   .++|++|+++
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 RQAHELELNNLGLSSLPE----LPPHLESLVASCN-SLTELPELP---QSLKSLLVDNNNLKALSDL---PPLLEYLGVS  106 (353)
T ss_dssp             HTCSEEECTTSCCSCCCS----CCTTCSEEECCSS-CCSSCCCCC---TTCCEEECCSSCCSCCCSC---CTTCCEEECC
T ss_pred             cCCCEEEeCCCCCCCCCC----CCCCCCEEECCCC-CCcccccch---hhhhhhhhhhcccchhhhh---cccccccccc
Confidence            578999999999999985    3579999999999 899999764   5788899999988877642   2469999999


Q ss_pred             CCCCccccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccccc
Q 038405          601 GMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK  680 (863)
Q Consensus       601 ~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~  680 (863)
                      +|. +..+|.  ++++++|++|++.++.+.......    .          .+..+.........    ......++.++
T Consensus       107 ~n~-l~~lp~--~~~l~~L~~L~l~~~~~~~~~~~~----~----------~l~~l~~~~~~~~~----~~~l~~l~~l~  165 (353)
T d1jl5a_         107 NNQ-LEKLPE--LQNSSFLKIIDVDNNSLKKLPDLP----P----------SLEFIAAGNNQLEE----LPELQNLPFLT  165 (353)
T ss_dssp             SSC-CSSCCC--CTTCTTCCEEECCSSCCSCCCCCC----T----------TCCEEECCSSCCSS----CCCCTTCTTCC
T ss_pred             ccc-cccccc--hhhhccceeecccccccccccccc----c----------cccchhhccccccc----cccccccccce
Confidence            997 778885  678999999999887654322111    1          11111111110000    01122345667


Q ss_pred             EEEecccCCcccccccccCCcceeEeccCcccccCCCCCCCCCCCCCCEEEEecCCCCCCCcccccCCCcceEeeccCcc
Q 038405          681 RLTIMHNLDSHSIDLRNMMHLETLNIVECSLERVDPTFNGWTNFHNLHHLSIRVCPVIRDLTWIREAPNLQFLSLVNCQA  760 (863)
Q Consensus       681 ~L~l~~~~~~~~~~l~~~~~L~~L~l~~~~l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l~~l~~l~~L~~L~L~~~~~  760 (863)
                      .+.+.++.......  .....+.+...++.+..++    ....++.|+.+++++|.....+.   ..+++..+.+.++..
T Consensus       166 ~L~l~~n~~~~~~~--~~~~~~~l~~~~~~~~~~~----~~~~l~~L~~l~l~~n~~~~~~~---~~~~l~~~~~~~~~~  236 (353)
T d1jl5a_         166 AIYADNNSLKKLPD--LPLSLESIVAGNNILEELP----ELQNLPFLTTIYADNNLLKTLPD---LPPSLEALNVRDNYL  236 (353)
T ss_dssp             EEECCSSCCSSCCC--CCTTCCEEECCSSCCSSCC----CCTTCTTCCEEECCSSCCSSCCS---CCTTCCEEECCSSCC
T ss_pred             eccccccccccccc--ccccccccccccccccccc----ccccccccccccccccccccccc---ccccccccccccccc
Confidence            77777665543322  1123445555555444432    23468899999999886433221   123333333333321


Q ss_pred             h----------------------hhhhcccC-----CccccccCccCcccceecccccccccccccCccCCCCccEEeec
Q 038405          761 L----------------------SEIIESAG-----SSEVAESHNYFAYLMVIDLDSLPSLKRICHGTMPFPSLQNVSVT  813 (863)
Q Consensus       761 l----------------------~~i~~~~~-----~~~~~~~~~~~~~L~~L~L~~~~~L~~l~~~~~~~~~L~~L~i~  813 (863)
                      .                      ..++....     ..........+++|++|+|+++ +++.++.   .+++|+.|+++
T Consensus       237 ~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp~---~~~~L~~L~L~  312 (353)
T d1jl5a_         237 TDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPA---LPPRLERLIAS  312 (353)
T ss_dssp             SCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECC
T ss_pred             cccccccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCcccc---ccCCCCEEECC
Confidence            1                      11110000     0000111234678999999886 5777653   36899999998


Q ss_pred             cCCCCCCCCCCCCCCCCcceEEEc
Q 038405          814 NCPNLRELPFNFDSAKNSLVSIRG  837 (863)
Q Consensus       814 ~C~~L~~lp~~~~~~~~~l~~i~~  837 (863)
                      +| +|+.+|..    ..+|+.+..
T Consensus       313 ~N-~L~~l~~~----~~~L~~L~L  331 (353)
T d1jl5a_         313 FN-HLAEVPEL----PQNLKQLHV  331 (353)
T ss_dssp             SS-CCSCCCCC----CTTCCEEEC
T ss_pred             CC-cCCccccc----cCCCCEEEC
Confidence            76 68888742    345555544

>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=99.36  E-value=6.7e-13  Score=116.92  Aligned_cols=103  Identities=28%  Similarity=0.358  Sum_probs=84.9

Q ss_pred             cEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEecCCCC
Q 038405          524 QTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       524 r~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l~~~~  603 (863)
                      |+|++++|.++.++.  +..+++|++|++++| .++.+|..++.+++|++|++++|.|+.+| .++++++|++|++++|.
T Consensus         1 R~L~Ls~n~l~~l~~--l~~l~~L~~L~ls~N-~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH--LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCCC--GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCcc--cccCCCCCEEECCCC-ccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCc
Confidence            678888888887775  788889999999988 78888888888999999999999998887 48889999999999887


Q ss_pred             Cccccch-hhhcCCCCCceeeccCcchhh
Q 038405          604 HFHLIPA-RVFSSLLSLKVFSLFSTELIE  631 (863)
Q Consensus       604 ~l~~lp~-~~i~~L~~L~~L~l~~~~~~~  631 (863)
                       +..+|. ..++++++|++|++.+|.+..
T Consensus        77 -i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          77 -LQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             -CCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             -cCCCCCchhhcCCCCCCEEECCCCcCCc
Confidence             555553 347788899999998887654

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.33  E-value=1.5e-12  Score=125.05  Aligned_cols=126  Identities=21%  Similarity=0.235  Sum_probs=110.3

Q ss_pred             eEEEeccCCccccCCCCCCCccEEEeecccccc-cchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETPCPHLQTLLVRFTVLEI-FPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~~~~Lr~L~l~~~~l~~-l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      ..+..+++.++.+|....+++++|++++|.+.. ++...|..+++|+.|+|++|......+..+..+++|++|+|++|+|
T Consensus        11 ~~v~Cs~~~L~~iP~~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l   90 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             TEEECTTSCCSSCCSCCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             CEEEEeCCCcCccCCCCCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccc
Confidence            357777888999998778899999999999964 6677789999999999999944445566788999999999999999


Q ss_pred             cccchh-hhcccCccEEecCCCCCccccchhhhcCCCCCceeeccCcch
Q 038405          582 EELPSE-IMYLKNLKILLLDGMRHFHLIPARVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       582 ~~lP~~-i~~L~~L~~L~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~  629 (863)
                      ..+|+. |.++++|++|+|++|. +..+|+++|..+++|++|++++|.+
T Consensus        91 ~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          91 KEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             cccCHHHHhCCCcccccccCCcc-ccccCHHHhcCCccccccccccccc
Confidence            999765 8899999999999998 8889888899999999999998754

>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=99.28  E-value=6e-12  Score=110.67  Aligned_cols=116  Identities=22%  Similarity=0.235  Sum_probs=98.7

Q ss_pred             eEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCc
Q 038405          503 FRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSI  581 (863)
Q Consensus       503 ~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i  581 (863)
                      |.+++++|.++.++... +++|++|++++|.++.+|+. +..+++|++|++++| .++.+|. ++++++|++|++++|.|
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 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDN-ALENVDG-VANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSS-CCCCCGG-GTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhh-hhhhhcccccccccc-cccccCc-cccccccCeEECCCCcc
Confidence            46889999999888755 99999999999999999876 789999999999999 8888875 99999999999999999


Q ss_pred             cccch--hhhcccCccEEecCCCCCccc---cchhhhcCCCCCcee
Q 038405          582 EELPS--EIMYLKNLKILLLDGMRHFHL---IPARVFSSLLSLKVF  622 (863)
Q Consensus       582 ~~lP~--~i~~L~~L~~L~l~~~~~l~~---lp~~~i~~L~~L~~L  622 (863)
                      ..+|.  .++.+++|++|++++|. +..   .+..++..+++|+.|
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~-i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNS-LCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSG-GGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCCCchhhcCCCCCCEEECCCCc-CCcCccHHHHHHHHCcCcceE
Confidence            98874  58899999999999987 433   344445566777665

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=5.6e-12  Score=116.78  Aligned_cols=119  Identities=21%  Similarity=0.200  Sum_probs=55.9

Q ss_pred             cceEEEeccCCccccCCCC--CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchh-hhcccccceeecc
Q 038405          501 EDFRLSLWGSSIEYLPETP--CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAE-MGALINLRCLNLS  577 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~-i~~L~~L~~L~L~  577 (863)
                      ++|.+++.+|.+..++...  +++|++|++++|.+..++.  +..+++|++|++++| .+..+|.. +..+++|++|+++
T Consensus        19 ~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~--~~~l~~L~~L~ls~N-~i~~l~~~~~~~l~~L~~L~L~   95 (162)
T d1a9na_          19 RDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTELILT   95 (162)
T ss_dssp             SCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCEEECC
T ss_pred             cCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCC--cccCcchhhhhcccc-cccCCCccccccccccccceec
Confidence            3445555555555544332  4455555555555444432  444555555555555 44444332 2345555555555


Q ss_pred             CCCccccch--hhhcccCccEEecCCCCCccccch---hhhcCCCCCceee
Q 038405          578 NTSIEELPS--EIMYLKNLKILLLDGMRHFHLIPA---RVFSSLLSLKVFS  623 (863)
Q Consensus       578 ~~~i~~lP~--~i~~L~~L~~L~l~~~~~l~~lp~---~~i~~L~~L~~L~  623 (863)
                      +|.|..++.  .+..+++|++|++++|. +...|.   .++..+++|++|+
T Consensus        96 ~N~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          96 NNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             SCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             cccccccccccccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeC
Confidence            555554442  34445555555555554 333331   2244445555544

>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=99.24  E-value=4.5e-12  Score=117.40  Aligned_cols=106  Identities=18%  Similarity=0.241  Sum_probs=67.1

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhh-hcccCccEEe
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEI-MYLKNLKILL  598 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i-~~L~~L~~L~  598 (863)
                      +.++|.|++++|.+..++. .+..+++|++|+|++| .+..++ .+..+++|++|++++|.|+.+|..+ ..+++|++|+
T Consensus        17 ~~~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_          17 AVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             TTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             cCcCcEEECCCCCCCccCc-cccccccCCEEECCCC-CCCccC-CcccCcchhhhhcccccccCCCccccccccccccce
Confidence            4566777777776666653 3456667777777777 566664 3666777777777777777666543 4567777777


Q ss_pred             cCCCCCccccch-hhhcCCCCCceeeccCcch
Q 038405          599 LDGMRHFHLIPA-RVFSSLLSLKVFSLFSTEL  629 (863)
Q Consensus       599 l~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~  629 (863)
                      +++|. +..++. ..+..+++|++|++.+|.+
T Consensus        94 L~~N~-i~~~~~l~~l~~l~~L~~L~l~~N~i  124 (162)
T d1a9na_          94 LTNNS-LVELGDLDPLASLKSLTYLCILRNPV  124 (162)
T ss_dssp             CCSCC-CCCGGGGGGGGGCTTCCEEECCSSGG
T ss_pred             ecccc-ccccccccccccccccchhhcCCCcc
Confidence            77765 444442 2255666677777666543

>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=1.2e-11  Score=126.65  Aligned_cols=61  Identities=23%  Similarity=0.278  Sum_probs=38.2

Q ss_pred             cccCCcceeEeccCc-ccccCCCCCCCCCCCCCCEEEEecCCCCCCC--cccccCCCcceEeeccC
Q 038405          696 RNMMHLETLNIVECS-LERVDPTFNGWTNFHNLHHLSIRVCPVIRDL--TWIREAPNLQFLSLVNC  758 (863)
Q Consensus       696 ~~~~~L~~L~l~~~~-l~~~~~~~~~~~~l~~L~~L~L~~~~~~~~l--~~l~~l~~L~~L~L~~~  758 (863)
                      ..+++|++|++++|. +++....  .+..+++|++|++++|..+++-  ..++++|+|+.|++++|
T Consensus       172 ~~~~~L~~L~L~~~~~itd~~~~--~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         172 RRCPNLVHLDLSDSVMLKNDCFQ--EFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             HHCTTCSEEECTTCTTCCGGGGG--GGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             cccccccccccccccCCCchhhh--hhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            345667777777664 4332211  2335677788888777665442  34667788888888777

>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=99.04  E-value=4.5e-10  Score=114.75  Aligned_cols=188  Identities=14%  Similarity=0.171  Sum_probs=109.1

Q ss_pred             CccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC-----CCCHHHHHHHH
Q 038405          152 TEKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK-----EGNLEKIQEVI  226 (863)
Q Consensus       152 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~i  226 (863)
                      .+.||||+++++++.+.    ..++|.|+|++|+|||+|++++.++.   ...   ..|+.+..     ......+...+
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~---~~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC---CCC---eEEEEeccccccccccHHHHHHHH
Confidence            47899999999998765    34789999999999999999998775   232   34554321     22234443333


Q ss_pred             HHHcC--------------CCc---------c-cc---cccChhhHHHHHHHHhccCcEEEEEccccccccc--cccccc
Q 038405          227 RKKLD--------------ISD---------Y-IW---NMKGEYDRAVEILISLRRKKFVLLLDDVWERLDL--SKTGVS  277 (863)
Q Consensus       227 ~~~l~--------------~~~---------~-~~---~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~--~~~~~~  277 (863)
                      .....              ...         . ..   ...+..+....+ ....+++.++|+|++......  ..+...
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESF-EQASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHH-HHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHH-HhhcccccccccchhhhhcccchHHHHHH
Confidence            33211              000         0 00   011112222222 223578999999998643211  111100


Q ss_pred             ---CCCCCCCeEEEEeecchhhh----------------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHH
Q 038405          278 ---LSDCQNGSKIVFTTRSEEVC----------------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAV  332 (863)
Q Consensus       278 ---l~~~~~gs~iivTTr~~~v~----------------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i  332 (863)
                         ..........+++++.....                      +.+++.+++.+++...+....... +    ..++|
T Consensus       160 l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~-~----~~~~i  234 (283)
T d2fnaa2         160 LAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-K----DYEVV  234 (283)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-C----CHHHH
T ss_pred             HHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH-H----HHHHH
Confidence               11122344555554433221                      789999999999987654322211 1    25699


Q ss_pred             HHHcCCChHHHHHHHHHHhCCCC
Q 038405          333 VGECKGLPLALITIARAMSSRRS  355 (863)
Q Consensus       333 ~~~c~glPLai~~~~~~l~~~~~  355 (863)
                      .+.++|.|..+..+|..+....+
T Consensus       235 ~~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         235 YEKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHHCC
T ss_pred             HHHhCCCHHHHHHHHHHHHhccc
Confidence            99999999999999887755333

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.03  E-value=1.4e-10  Score=110.92  Aligned_cols=110  Identities=18%  Similarity=0.156  Sum_probs=92.1

Q ss_pred             ccEEEeecccccccchhhhhcCCCccEEeccCCcCccc-c-chhhhcccccceeeccCCCccccch-hhhcccCccEEec
Q 038405          523 LQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQ-L-PAEMGALINLRCLNLSNTSIEELPS-EIMYLKNLKILLL  599 (863)
Q Consensus       523 Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~-l-p~~i~~L~~L~~L~L~~~~i~~lP~-~i~~L~~L~~L~l  599 (863)
                      .++++.+++.++.+|..+   .+++++|+|++| .+.. + +..|+++++|++|++++|.+..+|. .+..+++|++|++
T Consensus        10 ~~~v~Cs~~~L~~iP~~l---p~~l~~L~Ls~N-~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_          10 GTTVDCTGRGLKEIPRDI---PLHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TTEEECTTSCCSSCCSCC---CTTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCEEEEeCCCcCccCCCC---CCCCCEEEeCCC-CCcccccccccCCCceEeeeeccccccccccccccccccccceeee
Confidence            467888888999999863   368999999999 6653 4 4567899999999999999998765 5888999999999


Q ss_pred             CCCCCccccchhhhcCCCCCceeeccCcchhhhccCCC
Q 038405          600 DGMRHFHLIPARVFSSLLSLKVFSLFSTELIELHRMPP  637 (863)
Q Consensus       600 ~~~~~l~~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~  637 (863)
                      ++|+ +..+|+++|.++++|++|++++|.+..+.+..+
T Consensus        86 s~N~-l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f  122 (192)
T d1w8aa_          86 GENK-IKEISNKMFLGLHQLKTLNLYDNQISCVMPGSF  122 (192)
T ss_dssp             CSCC-CCEECSSSSTTCTTCCEEECCSSCCCEECTTSS
T ss_pred             cccc-ccccCHHHHhCCCcccccccCCccccccCHHHh
Confidence            9997 888888889999999999999998776655444

>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=98.98  E-value=2.7e-11  Score=116.32  Aligned_cols=106  Identities=20%  Similarity=0.203  Sum_probs=73.8

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccCCCccccchhhhcccCccEEec
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSNTSIEELPSEIMYLKNLKILLL  599 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~~~i~~lP~~i~~L~~L~~L~l  599 (863)
                      +++|+.|++++|.++.++.  +..+++|++|+|++| .++.+|..+..+++|++|++++|.|+.++ .+.++++|++|++
T Consensus        47 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_          47 LKACKHLALSTNNIEKISS--LSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             TTTCCEEECSEEEESCCCC--HHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEE
T ss_pred             ccccceeECcccCCCCccc--ccCCccccChhhccc-ccccccccccccccccccccccccccccc-ccccccccccccc
Confidence            6777777777777777653  667777777777777 66777765566667777777777777764 4677777777777


Q ss_pred             CCCCCccccch-hhhcCCCCCceeeccCcchh
Q 038405          600 DGMRHFHLIPA-RVFSSLLSLKVFSLFSTELI  630 (863)
Q Consensus       600 ~~~~~l~~lp~-~~i~~L~~L~~L~l~~~~~~  630 (863)
                      ++|. +..++. ..+..|++|++|++.+|.+.
T Consensus       123 ~~N~-i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         123 SNNK-ITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             SEEE-CCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             ccch-hccccccccccCCCccceeecCCCccc
Confidence            7776 444442 23667777777777776544

>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=98.97  E-value=5.2e-11  Score=114.25  Aligned_cols=101  Identities=26%  Similarity=0.328  Sum_probs=49.6

Q ss_pred             ccceEEEeccCCccccCCCC-CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccchhhhcccccceeeccC
Q 038405          500 REDFRLSLWGSSIEYLPETP-CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPAEMGALINLRCLNLSN  578 (863)
Q Consensus       500 ~~~~~l~l~~~~~~~l~~~~-~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~~i~~L~~L~~L~L~~  578 (863)
                      .+++++.+++|.++.++... +++|++|++++|.+..+|.- +..++.|++|++++| .+..++ .+..+++|++|++++
T Consensus        48 ~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~-~~~~~~L~~L~l~~N-~i~~l~-~~~~l~~L~~L~L~~  124 (198)
T d1m9la_          48 KACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYN-QIASLS-GIEKLVNLRVLYMSN  124 (198)
T ss_dssp             TTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSH-HHHHHHCCEEECSEE-ECCCHH-HHHHHHHSSEEEESE
T ss_pred             cccceeECcccCCCCcccccCCccccChhhccccccccccc-ccccccccccccccc-cccccc-ccccccccccccccc
Confidence            34455555555555544322 55555555555555544431 233344555555555 444443 244555555555555


Q ss_pred             CCccccch--hhhcccCccEEecCCCC
Q 038405          579 TSIEELPS--EIMYLKNLKILLLDGMR  603 (863)
Q Consensus       579 ~~i~~lP~--~i~~L~~L~~L~l~~~~  603 (863)
                      |.|+.++.  .+..+++|++|++++|+
T Consensus       125 N~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         125 NKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             EECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             chhccccccccccCCCccceeecCCCc
Confidence            55554442  34555555555555554

>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=98.82  E-value=4.9e-09  Score=95.83  Aligned_cols=106  Identities=16%  Similarity=0.107  Sum_probs=67.1

Q ss_pred             CCCccEEEeecccccccchhhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccch-hhhcccCccEE
Q 038405          520 CPHLQTLLVRFTVLEIFPHRFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELPS-EIMYLKNLKIL  597 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP~-~i~~L~~L~~L  597 (863)
                      |.....+...++.+...|.. +..+++|+.|+++++..++.++. .|.++++|+.|++++|+|+.++. .+..+++|++|
T Consensus         7 c~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L   85 (156)
T d2ifga3           7 PHGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRL   85 (156)
T ss_dssp             CSSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEE
T ss_pred             cCCCCeEEecCCCCccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccce
Confidence            33444555555555555554 55666777777765545666643 46677777777777777777743 36677777777


Q ss_pred             ecCCCCCccccchhhhcCCCCCceeeccCcc
Q 038405          598 LLDGMRHFHLIPARVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       598 ~l~~~~~l~~lp~~~i~~L~~L~~L~l~~~~  628 (863)
                      +|++|. +..+|.+++.. .+|++|++++|.
T Consensus        86 ~Ls~N~-l~~l~~~~~~~-~~l~~L~L~~Np  114 (156)
T d2ifga3          86 NLSFNA-LESLSWKTVQG-LSLQELVLSGNP  114 (156)
T ss_dssp             ECCSSC-CSCCCSTTTCS-CCCCEEECCSSC
T ss_pred             eccCCC-CcccChhhhcc-ccccccccCCCc
Confidence            777776 66677664443 357777777654

>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=98.79  E-value=6.4e-09  Score=113.97  Aligned_cols=102  Identities=19%  Similarity=0.129  Sum_probs=68.9

Q ss_pred             cceEEEeccCCccccCCC---C-CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCccc-----cchhhh-
Q 038405          501 EDFRLSLWGSSIEYLPET---P-CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLTQ-----LPAEMG-  566 (863)
Q Consensus       501 ~~~~l~l~~~~~~~l~~~---~-~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~~-----lp~~i~-  566 (863)
                      +++.+.+.++.+......   . ++++++|.|.+|.++...    ...+..+++|++|||++| .+..     +...+. 
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 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCS
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHHHHHHhc
Confidence            466778888777653211   1 788888999888665322    123567888999999888 5532     222222 


Q ss_pred             cccccceeeccCCCccc-----cchhhhcccCccEEecCCCC
Q 038405          567 ALINLRCLNLSNTSIEE-----LPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       567 ~L~~L~~L~L~~~~i~~-----lP~~i~~L~~L~~L~l~~~~  603 (863)
                      ...+|++|+|++|.|+.     ++..+..+++|++|++++|.
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CCCCCCEEECCCCCccccccccccchhhcccccccccccccc
Confidence            23478899998888763     45667788889999988876

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.74  E-value=1.2e-08  Score=93.11  Aligned_cols=99  Identities=21%  Similarity=0.183  Sum_probs=84.5

Q ss_pred             EEeccCCccccCCCC--CCCccEEEeecc-cccccchhhhhcCCCccEEeccCCcCcccc-chhhhcccccceeeccCCC
Q 038405          505 LSLWGSSIEYLPETP--CPHLQTLLVRFT-VLEIFPHRFFESMGALKVLDLSYNLDLTQL-PAEMGALINLRCLNLSNTS  580 (863)
Q Consensus       505 l~l~~~~~~~l~~~~--~~~Lr~L~l~~~-~l~~l~~~~~~~l~~L~~L~Ls~~~~i~~l-p~~i~~L~~L~~L~L~~~~  580 (863)
                      +...++.....|...  +++|+.|.+.++ .++.++...|..+++|+.|+|++| .++.+ |..|..+++|++|+|++|+
T Consensus        13 l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~i~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          13 LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeecc-ccCCcccccccccccccceeccCCC
Confidence            555566666666554  789999999876 699999988999999999999999 78877 5568999999999999999


Q ss_pred             ccccchhhhcccCccEEecCCCCC
Q 038405          581 IEELPSEIMYLKNLKILLLDGMRH  604 (863)
Q Consensus       581 i~~lP~~i~~L~~L~~L~l~~~~~  604 (863)
                      |+.+|..+....+|++|+|++|..
T Consensus        92 l~~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          92 LESLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSSCC
T ss_pred             CcccChhhhccccccccccCCCcc
Confidence            999999877777899999999973

>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=98.65  E-value=3e-08  Score=97.19  Aligned_cols=166  Identities=11%  Similarity=0.169  Sum_probs=102.0

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      +++||.++.++.+.+|+..+..+.+-++|++|+||||+|+.+++... . ..+ ..+.-...+...+.......+.....
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~-~-~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~   91 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY-G-KNYSNMVLELNASDDRGIDVVRNQIKDFAS   91 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH-T-TSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh-c-CCCcceeEEecccccCCeeeeecchhhccc
Confidence            67899999999999999887777688999999999999999998751 1 111 12222233333332222111111100


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------  297 (863)
                      ..                 ....+++-.+|+|+++...  .-..+...+....+.++++++|....-.            
T Consensus        92 ~~-----------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~  154 (227)
T d1sxjc2          92 TR-----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFR  154 (227)
T ss_dssp             BC-----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             cc-----------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhc
Confidence            00                 0112345588999998642  2223333333445678888888764432            


Q ss_pred             cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          298 VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       298 l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      +.+++.++-.+.+...+.......+   .+..+.|++.++|-.
T Consensus       155 ~~~~~~~~i~~~l~~I~~~e~i~i~---~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         155 FQPLPQEAIERRIANVLVHEKLKLS---PNAEKALIELSNGDM  194 (227)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCCBC---HHHHHHHHHHHTTCH
T ss_pred             cccccccccccccccccccccccCC---HHHHHHHHHHcCCcH
Confidence            7788888888888776644332221   566788888888853

>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=98.64  E-value=2.8e-08  Score=98.20  Aligned_cols=178  Identities=10%  Similarity=0.122  Sum_probs=107.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      ++++|.++.++.+.+++.....+.+.++|++|+||||+|+.+++..............+..+.......+...+-.....
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL   91 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHS
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhh
Confidence            56899999999999999887777788999999999999999987641111112233444555555544433333221111


Q ss_pred             CcccccccChhhHHHHHHHHhccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh------------c
Q 038405          233 SDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC------------V  298 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~------------l  298 (863)
                      ..   ....    ...+.....++.-.+|+|+++...  ....+...+......+++|+||....-.            +
T Consensus        92 ~~---~~~~----~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f  164 (237)
T d1sxjd2          92 TV---SKPS----KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRF  164 (237)
T ss_dssp             CC---CCCC----TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEEC
T ss_pred             hh---hhhh----HHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhcc
Confidence            10   0000    111222233445579999997642  2222222222334566777776654322            7


Q ss_pred             ccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       299 ~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ++++.++..+.+...+.......   ..+..+.|++.++|-+
T Consensus       165 ~~~~~~~~~~~L~~i~~~e~i~i---~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         165 KALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDL  203 (237)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCH
T ss_pred             ccccccccchhhhhhhhhhcCcC---CHHHHHHHHHHcCCCH
Confidence            88999999998887765433222   2567788999998754

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.63  E-value=2.6e-08  Score=104.61  Aligned_cols=83  Identities=13%  Similarity=0.059  Sum_probs=48.2

Q ss_pred             CCCccEEEeecccccccc----hhhhhcCCCccEEeccCCcCccc-----------cchhhhcccccceeeccCCCccc-
Q 038405          520 CPHLQTLLVRFTVLEIFP----HRFFESMGALKVLDLSYNLDLTQ-----------LPAEMGALINLRCLNLSNTSIEE-  583 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~~-----------lp~~i~~L~~L~~L~L~~~~i~~-  583 (863)
                      ...++.|++++|.+..-.    ...+...++|+.|+++++ ....           +...+..+++|++|+|++|.+.. 
T Consensus        30 ~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  108 (344)
T d2ca6a1          30 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  108 (344)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             CCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCC-cccccccccchHHHHHHHHHhhCCCcccccccccccccc
Confidence            566777777776443211    112445677777777765 2211           22233456677777777776553 


Q ss_pred             ----cchhhhcccCccEEecCCCC
Q 038405          584 ----LPSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       584 ----lP~~i~~L~~L~~L~l~~~~  603 (863)
                          +...+...++|++|++++|.
T Consensus       109 ~~~~l~~~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1         109 AQEPLIDFLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSC
T ss_pred             cccchhhhhcccccchheeccccc
Confidence                44445566777777777765

>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=98.60  E-value=1.4e-08  Score=111.20  Aligned_cols=84  Identities=19%  Similarity=0.135  Sum_probs=60.4

Q ss_pred             ccccceEEEeccCCccc-----cCCCC--CCCccEEEeecccccccchhhhh-----cCCCccEEeccCCcCccc-----
Q 038405          498 SWREDFRLSLWGSSIEY-----LPETP--CPHLQTLLVRFTVLEIFPHRFFE-----SMGALKVLDLSYNLDLTQ-----  560 (863)
Q Consensus       498 ~~~~~~~l~l~~~~~~~-----l~~~~--~~~Lr~L~l~~~~l~~l~~~~~~-----~l~~L~~L~Ls~~~~i~~-----  560 (863)
                      ..+.++.+.+.++.++.     +....  +++|+.|++++|.+.......+.     ....|++|+|++| .++.     
T Consensus        25 ~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~it~~~~~~  103 (460)
T d1z7xw1          25 LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CLTGAGCGV  103 (460)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTS-CCBGGGHHH
T ss_pred             hCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCC-Ccccccccc
Confidence            34677889999997753     22222  88999999999977532211121     2357999999999 5543     


Q ss_pred             cchhhhcccccceeeccCCCcc
Q 038405          561 LPAEMGALINLRCLNLSNTSIE  582 (863)
Q Consensus       561 lp~~i~~L~~L~~L~L~~~~i~  582 (863)
                      ++..+..+++|++|++++|.|.
T Consensus       104 l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1         104 LSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             HHHHTTSCTTCCEEECCSSBCH
T ss_pred             ccchhhccccccccccccccch
Confidence            5667788999999999998765

>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=98.59  E-value=4.6e-08  Score=95.56  Aligned_cols=169  Identities=15%  Similarity=0.131  Sum_probs=105.2

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDI  232 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~  232 (863)
                      +++||.++.++.+.+++.+.....+.++|++|+||||+|+.+++........+ .+.-+..+...+...+...+......
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~-~~~~~n~~~~~~~~~i~~~~~~~~~~   93 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYAD-GVLELNASDDRGIDVVRNQIKHFAQK   93 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHH-HEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhcccccc-ccccccccccCCceehhhHHHHHHHh
Confidence            67899999999999999888777788999999999999999887651110111 23344444444443333222221111


Q ss_pred             CcccccccChhhHHHHHHHHhccCcEEEEEcccccccc--cccccccCCCCCCCeEEEEeecchhhh------------c
Q 038405          233 SDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD--LSKTGVSLSDCQNGSKIVFTTRSEEVC------------V  298 (863)
Q Consensus       233 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~~~~~l~~~~~gs~iivTTr~~~v~------------l  298 (863)
                      ...                .-.++.-++|+|+++....  ...+...+......+++++||.+..-.            +
T Consensus        94 ~~~----------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~  157 (224)
T d1sxjb2          94 KLH----------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRY  157 (224)
T ss_dssp             CCC----------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             hcc----------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhh
Confidence            000                0023556888999986422  222322333344566777666654322            8


Q ss_pred             ccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          299 ECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       299 ~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      ++++.++-...+...+.......+   .+..+.|++.|+|.+-
T Consensus       158 ~~~~~~~i~~~l~~i~~~e~~~i~---~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         158 SKLSDEDVLKRLLQIIKLEDVKYT---NDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTCCBC---HHHHHHHHHHHTTCHH
T ss_pred             cccchhhhHHHHHHHHHhcccCCC---HHHHHHHHHHcCCcHH
Confidence            889999998888877644332222   5677899999999874

>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=98.58  E-value=1.1e-06  Score=88.39  Aligned_cols=158  Identities=15%  Similarity=0.141  Sum_probs=104.0

Q ss_pred             ccccchhhHHHHHHHhhcc------CCceEEEEEcCCCChHHHHhhhhhhccccccCCC-CEEEEEEeCCCCCHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF-DLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~  225 (863)
                      ..++||+.++++|.++|..      ...+.+.|+|++|+||||+|+.+++..   ...+ ...+|+..............
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l---~~~~~~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH---hcccCCcEEEecchhhhhhhhhhhh
Confidence            4589999999999999843      345789999999999999999999887   2222 34567777778888888888


Q ss_pred             HHHHcCCCcccccccChhhHHHHHHHHhcc--CcEEEEEcccccccc-----cccccccCC-CCCCCeEEEEeecchhhh
Q 038405          226 IRKKLDISDYIWNMKGEYDRAVEILISLRR--KKFVLLLDDVWERLD-----LSKTGVSLS-DCQNGSKIVFTTRSEEVC  297 (863)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~-----~~~~~~~l~-~~~~gs~iivTTr~~~v~  297 (863)
                      +....+..... ...........+.+.+..  ....+++|++++...     ...+....+ .......+|.++......
T Consensus        93 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          93 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hHHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            88887655421 233445555555555533  567777888776421     111221111 122233455555543321


Q ss_pred             -----------------cccCCHHHHHHHHhHhh
Q 038405          298 -----------------VECLSPEAALDLFRYKV  314 (863)
Q Consensus       298 -----------------l~~L~~~~a~~Lf~~~~  314 (863)
                                       +.+.+.++.++.+.+.+
T Consensus       172 ~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         172 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                             67788999999888765

>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=98.51  E-value=1.1e-06  Score=86.40  Aligned_cols=182  Identities=15%  Similarity=0.110  Sum_probs=103.5

Q ss_pred             ccccchhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      .+++|.++.++.+.+++..... ..+.|+|+.|+||||+|+.+++... .....+       ............+...-.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~-~~~~~~-------~~~~~~~~~~~~i~~~~~   83 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGIT-------ATPCGVCDNCREIEQGRF   83 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHH-CTTCSC-------SSCCSCSHHHHHHHHTCC
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc-Cccccc-------cCccccchHHHHHHcCCC
Confidence            5789999999999999977654 4688999999999999999877651 111100       000111111112222110


Q ss_pred             CCcccc---cccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchhhh----
Q 038405          232 ISDYIW---NMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEEVC----  297 (863)
Q Consensus       232 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~v~----  297 (863)
                      ......   .....++ ...+.+..     .+++-++|+|+++...  ....+...+......+++|+||.+..-.    
T Consensus        84 ~~~~~~~~~~~~~i~~-ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i  162 (239)
T d1njfa_          84 VDLIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTI  162 (239)
T ss_dssp             TTEEEEETTCSSSHHH-HHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHH
T ss_pred             CeEEEecchhcCCHHH-HHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhH
Confidence            000000   0001111 11122221     2456689999998642  2223333333345677888887765433    


Q ss_pred             --------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH-HHHHH
Q 038405          298 --------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL-ALITI  346 (863)
Q Consensus       298 --------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  346 (863)
                              +.+++.++-.+.+...+.......   .++....|++.++|.+- |+..+
T Consensus       163 ~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~---~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         163 LSRCLQFHLKALDVEQIRHQLEHILNEEHIAH---EPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhhhcccccccCcHHHhhhHHHHHHhhhccCC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence                    788899888887777664332211   25678889999999884 44443

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.49  E-value=1.6e-08  Score=106.35  Aligned_cols=223  Identities=16%  Similarity=0.088  Sum_probs=127.5

Q ss_pred             hhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCccc-----------cchhhhcccCccEEecCCCCC
Q 038405          541 FESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIEE-----------LPSEIMYLKNLKILLLDGMRH  604 (863)
Q Consensus       541 ~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~~-----------lP~~i~~L~~L~~L~l~~~~~  604 (863)
                      +.....|+.|+|++| .+.     .+-..+...++|+.|+++++.+..           +...+..+++|++|++++|..
T Consensus        27 L~~~~~l~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i  105 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  105 (344)
T ss_dssp             HHHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HhhCCCCCEEECcCC-cCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccc
Confidence            677899999999998 442     334456678999999999875432           233456788999999999863


Q ss_pred             cc----ccchhhhcCCCCCceeeccCcchhhhccCCCCccccchhhhhhcccceeeEEeecCchhhhhhhcccccccccc
Q 038405          605 FH----LIPARVFSSLLSLKVFSLFSTELIELHRMPPNQTTILDELECLGNQIYEISITLGSASALFKINFSWKLCSCIK  680 (863)
Q Consensus       605 l~----~lp~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~l~~L~~l~n~L~~l~~~~~~~~~l~~l~~~~~~~~~L~  680 (863)
                      -.    .+... +...++|++|++++|.+.......  -...+.++...                     ......+.|+
T Consensus       106 ~~~~~~~l~~~-l~~~~~L~~L~l~~n~l~~~~~~~--l~~~l~~~~~~---------------------~~~~~~~~L~  161 (344)
T d2ca6a1         106 GPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQAGAK--IARALQELAVN---------------------KKAKNAPPLR  161 (344)
T ss_dssp             CTTTHHHHHHH-HHHCTTCCEEECCSSCCHHHHHHH--HHHHHHHHHHH---------------------HHHHTCCCCC
T ss_pred             ccccccchhhh-hcccccchheeccccccccccccc--ccccccccccc---------------------cccccCcccc
Confidence            22    13322 557789999999987643210000  00001111100                     0011234566


Q ss_pred             EEEecccCCcccc------cccccCCcceeEeccCccccc---CCCCCCCCCCCCCCEEEEecCCCCCC----C-ccccc
Q 038405          681 RLTIMHNLDSHSI------DLRNMMHLETLNIVECSLERV---DPTFNGWTNFHNLHHLSIRVCPVIRD----L-TWIRE  746 (863)
Q Consensus       681 ~L~l~~~~~~~~~------~l~~~~~L~~L~l~~~~l~~~---~~~~~~~~~l~~L~~L~L~~~~~~~~----l-~~l~~  746 (863)
                      .+.++.+......      .+..++.|++|++++|.+...   ......+..+++|+.|++++|.....    + ..+..
T Consensus       162 ~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~  241 (344)
T d2ca6a1         162 SIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKS  241 (344)
T ss_dssp             EEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGG
T ss_pred             eeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccc
Confidence            7777666543221      145567788888888875432   00011344677888888887753211    1 34567


Q ss_pred             CCCcceEeeccCcchhhhhcccCCccccccCccCcccceeccccc
Q 038405          747 APNLQFLSLVNCQALSEIIESAGSSEVAESHNYFAYLMVIDLDSL  791 (863)
Q Consensus       747 l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~~~~~~~L~~L~L~~~  791 (863)
                      +++|++|+|++|..-..-.....   ........++|+.|+|+++
T Consensus       242 ~~~L~~L~Ls~n~i~~~g~~~l~---~~l~~~~~~~L~~L~ls~N  283 (344)
T d2ca6a1         242 WPNLRELGLNDCLLSARGAAAVV---DAFSKLENIGLQTLRLQYN  283 (344)
T ss_dssp             CTTCCEEECTTCCCCHHHHHHHH---HHHHTCSSCCCCEEECCSS
T ss_pred             cccchhhhhhcCccCchhhHHHH---HHhhhccCCCCCEEECCCC
Confidence            78888888888863221110000   0011223567888888765

>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=98.46  E-value=2.1e-07  Score=91.27  Aligned_cols=166  Identities=13%  Similarity=0.122  Sum_probs=97.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCC-EEEEEEeCCCCCHHHHHHHHHHHcC
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFD-LVIFVAVSKEGNLEKIQEVIRKKLD  231 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~  231 (863)
                      ++++|.++.++++..++.....+-+.++|++|+||||+|+.+++...  ...+. ..+-+..+...+...+...+.....
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~--~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~  101 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFAR  101 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH--hcccCCCeeEEecCcccchhHHHHHHHHHHh
Confidence            57899999999999999888888889999999999999999988651  11111 1122232221111111111111000


Q ss_pred             CCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh-hh-----------
Q 038405          232 ISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE-VC-----------  297 (863)
Q Consensus       232 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~-v~-----------  297 (863)
                      ..                 .....++.++++|+++..  ..+..+...+........+|.||.... +.           
T Consensus       102 ~~-----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~  164 (231)
T d1iqpa2         102 TK-----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFR  164 (231)
T ss_dssp             SC-----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEE
T ss_pred             hh-----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccccc
Confidence            00                 011246778899998753  223333333322333455666665443 22           


Q ss_pred             cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          298 VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       298 l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      +.+.+.++....+...+.......   ..+..+.|++.|+|-.
T Consensus       165 ~~~~~~~~~~~~l~~~~~~e~i~i---~~~~l~~I~~~~~gdi  204 (231)
T d1iqpa2         165 FRPLRDEDIAKRLRYIAENEGLEL---TEEGLQAILYIAEGDM  204 (231)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCEE---CHHHHHHHHHHHTTCH
T ss_pred             ccccchhhHHHHHHHHHHHhCCCC---CHHHHHHHHHHcCCCH
Confidence            677888888888877664333211   1566788999998864

>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=98.33  E-value=4.4e-07  Score=90.21  Aligned_cols=179  Identities=10%  Similarity=0.063  Sum_probs=93.3

Q ss_pred             ccccchhhHHHHHHHhhccC-CceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEEEeCCC------------
Q 038405          153 EKTVGADSKLDEVWGCIEDQ-SEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFVAVSKE------------  216 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~------------  216 (863)
                      ++++|.++..+.+.+++... ...-+.|+|++|+||||+|+.+++.....   ...++...+...+..            
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   90 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCcc
Confidence            57899999999999888653 34457799999999999999998864110   111122222111100            


Q ss_pred             ---------CCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCe
Q 038405          217 ---------GNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGS  285 (863)
Q Consensus       217 ---------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs  285 (863)
                               ..................        ......-.....++.-++|+|+++..  ..+..+...+......+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~  162 (252)
T d1sxje2          91 LEITPSDMGNNDRIVIQELLKEVAQME--------QVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  162 (252)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTT--------C------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             ceeeecccccCCcceeeehhhhhhhhh--------hhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccc
Confidence                     000000111111100000        00000000112234558889998763  22333333333345567


Q ss_pred             EEEEeecchhhh------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          286 KIVFTTRSEEVC------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       286 ~iivTTr~~~v~------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      ++|+||.+..-.            +.+++.++..+.+...+........  .++..+.|++.+.|.+-
T Consensus       163 ~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~--~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         163 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLR  228 (252)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHH
T ss_pred             cceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCcHH
Confidence            778777655321            7788999999888766533221111  24667889999988764

>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=98.31  E-value=6e-06  Score=83.27  Aligned_cols=182  Identities=11%  Similarity=0.090  Sum_probs=106.9

Q ss_pred             ccccchhhHHHHHHHhhcc--------CC-ceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCIED--------QS-EQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~--------~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~  220 (863)
                      +.++||+.++++|.+++..        .. ..++.|+|++|+||||+|+.+++....   .........++.........
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            5688999999999987732        11 234667899999999999999987521   11222456677888887888


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhc--cCcEEEEEcccccccc-----------cccccccC---CCCCCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR--RKKFVLLLDDVWERLD-----------LSKTGVSL---SDCQNG  284 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~-----------~~~~~~~l---~~~~~g  284 (863)
                      .....+...++..... ...........+.+...  +...++++|.++....           +..+...+   .....-
T Consensus        96 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  174 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  174 (287)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             hHHHHHhhhccccccc-ccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccce
Confidence            8888888877654321 23344455555555443  4567788887764311           11111111   122223


Q ss_pred             eEEEEeecchhhh------------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHc
Q 038405          285 SKIVFTTRSEEVC------------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGEC  336 (863)
Q Consensus       285 s~iivTTr~~~v~------------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c  336 (863)
                      ..|++++......                  +.+++.++..+++...+..... ...-.++..+.|+++.
T Consensus       175 ~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~-~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         175 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLR-DTVWEPRHLELISDVY  243 (287)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBC-TTSCCHHHHHHHHHHH
T ss_pred             eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhc-cCCCCHHHHHHHHHHH
Confidence            3344444333211                  6678899999988876532110 1111145566666654

>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=98.31  E-value=2.1e-06  Score=84.23  Aligned_cols=143  Identities=15%  Similarity=0.184  Sum_probs=88.4

Q ss_pred             cccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEE-EeCCCCCHHHHHHHHHHH
Q 038405          154 KTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFV-AVSKEGNLEKIQEVIRKK  229 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv-~~~~~~~~~~~~~~i~~~  229 (863)
                      ..+||++++++++..|....-.-+.++|.+|+|||+++..++.+....   ....+..+|. +++.-             
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-------------   85 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-------------   85 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------------
T ss_pred             cccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-------------
Confidence            478999999999999977666667799999999999999988765211   1112234443 22211             


Q ss_pred             cCCCcccccccChhhHHHHHHHHhc-cCcEEEEEccccccc----------ccccccccCCCCCCCeEEEEeecchhhh-
Q 038405          230 LDISDYIWNMKGEYDRAVEILISLR-RKKFVLLLDDVWERL----------DLSKTGVSLSDCQNGSKIVFTTRSEEVC-  297 (863)
Q Consensus       230 l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~----------~~~~~~~~l~~~~~gs~iivTTr~~~v~-  297 (863)
                      +....   -....++....+.+.+. .++.++++|++..-.          +...+..|.-. ...-++|.||...+.. 
T Consensus        86 iag~~---~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          86 LAGTK---YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             -CCCC---CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHC
T ss_pred             hccCc---cchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHH
Confidence            01111   13345666666666664 467999999986531          22333333322 2245788888766654 


Q ss_pred             ----------------cccCCHHHHHHHHhHh
Q 038405          298 ----------------VECLSPEAALDLFRYK  313 (863)
Q Consensus       298 ----------------l~~L~~~~a~~Lf~~~  313 (863)
                                      ++..+.+++.+++...
T Consensus       162 ~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~  193 (268)
T d1r6bx2         162 IFEKDRALARRFQKIDITEPSIEETVQIINGL  193 (268)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHH
T ss_pred             HHhhcHHHHhhhcccccCCCCHHHHHHHHHHh
Confidence                            6666777777666543

>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=98.17  E-value=1.5e-06  Score=80.12  Aligned_cols=100  Identities=13%  Similarity=0.247  Sum_probs=63.2

Q ss_pred             cccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEEEeCCCCCHHHHHHHHHHHc
Q 038405          154 KTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFVAVSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  230 (863)
                      ..|||++++++++..|....-.-+.++|.+|+|||+++..++.+....   ...-+..+|.-     +...+.    .  
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li----A--   91 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV----A--   91 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH----T--
T ss_pred             CCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh----c--
Confidence            478999999999999987666678899999999999999888765211   11123444432     222221    1  


Q ss_pred             CCCcccccccChhhHHHHHHHHh-c-cCcEEEEEcccccc
Q 038405          231 DISDYIWNMKGEYDRAVEILISL-R-RKKFVLLLDDVWER  268 (863)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~  268 (863)
                      +..    -....++....+.+.+ + ..+.+|++|++..-
T Consensus        92 g~~----~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l  127 (195)
T d1jbka_          92 GAK----YRGEFEERLKGVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             TTC----SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGG
T ss_pred             cCC----ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHH
Confidence            111    0123444455555444 3 34799999998753

>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=98.13  E-value=8.1e-06  Score=80.74  Aligned_cols=176  Identities=11%  Similarity=0.098  Sum_probs=98.5

Q ss_pred             ccccchhhHHHHHHHhhcc-----------------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          153 EKTVGADSKLDEVWGCIED-----------------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      .+++|.+..+++|.+++..                 ...+.+.++|++|+||||+|+.+++..   .   -...++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~---~---~~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G---YDILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T---CEEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH---H---hhhhcccccc
Confidence            6789999999999998842                 234679999999999999999999876   1   1345666655


Q ss_pred             CCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc-----cccccccCCCCCCCeEEEEe
Q 038405          216 EGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD-----LSKTGVSLSDCQNGSKIVFT  290 (863)
Q Consensus       216 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----~~~~~~~l~~~~~gs~iivT  290 (863)
                      ..+...+-.. .+........  ......  ........++..++++|++.....     +..+......  ....|++|
T Consensus        88 ~~~~~~~~~~-~~~~~~~~~~--~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~--~~~~ii~i  160 (253)
T d1sxja2          88 VRSKTLLNAG-VKNALDNMSV--VGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILI  160 (253)
T ss_dssp             CCCHHHHHHT-GGGGTTBCCS--TTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEE
T ss_pred             chhhHHHHHH-HHHHhhcchh--hhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc--cccccccc
Confidence            5544433222 2221111100  000000  011112345788899999875321     1122111111  12234444


Q ss_pred             ecchhh---h----------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh-HHHH
Q 038405          291 TRSEEV---C----------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP-LALI  344 (863)
Q Consensus       291 Tr~~~v---~----------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~  344 (863)
                      +.....   .          +.+.+.++-...+...+.......+   .+...+|++.++|-. -|+.
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~---~~~l~~i~~~s~GDiR~ai~  225 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVIN  225 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHH
T ss_pred             cccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC---HHHHHHHHHhCCCcHHHHHH
Confidence            432221   1          7778888888877766543332222   245788999999966 4443

>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=98.08  E-value=2.1e-05  Score=74.67  Aligned_cols=171  Identities=12%  Similarity=0.033  Sum_probs=96.1

Q ss_pred             chhhHHHHHHHhhccCCc-eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcc
Q 038405          157 GADSKLDEVWGCIEDQSE-QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDY  235 (863)
Q Consensus       157 Gr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  235 (863)
                      +.+...+++.+.+..+.. ..+.++|+.|+||||+|+.+++...........    .....    .-...+.........
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~----~~~~~----~~~~~i~~~~~~~~~   77 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK----SCGHC----RGCQLMQAGTHPDYY   77 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB----CCSCS----HHHHHHHHTCCTTEE
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc----ccccc----chhhhhhhccccccc
Confidence            445667888888877664 469999999999999999888754100000000    00000    001111111100000


Q ss_pred             cc-----cccChhhHHHHHHHHh-----ccCcEEEEEccccccc--ccccccccCCCCCCCeEEEEeecchh-hh-----
Q 038405          236 IW-----NMKGEYDRAVEILISL-----RRKKFVLLLDDVWERL--DLSKTGVSLSDCQNGSKIVFTTRSEE-VC-----  297 (863)
Q Consensus       236 ~~-----~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~~~~~l~~~~~gs~iivTTr~~~-v~-----  297 (863)
                      ..     ...-..+.+..+.+.+     .+++-++|+||++...  ....+...+-....++.+|+||++.. +.     
T Consensus        78 ~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~S  157 (207)
T d1a5ta2          78 TLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRS  157 (207)
T ss_dssp             EECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             hhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcc
Confidence            00     0000111222233332     2467799999998642  33444444444456788888887764 22     


Q ss_pred             ------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHH
Q 038405          298 ------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLAL  343 (863)
Q Consensus       298 ------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  343 (863)
                            +.+++.++....+......        .++.+..|++.++|.|-.+
T Consensus       158 Rc~~i~~~~~~~~~~~~~L~~~~~~--------~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         158 RCRLHYLAPPPEQYAVTWLSREVTM--------SQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHCCC--------CHHHHHHHHHHTTTCHHHH
T ss_pred             eeEEEecCCCCHHHHHHHHHHcCCC--------CHHHHHHHHHHcCCCHHHH
Confidence                  7788999988888654321        1567888999999988543

>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=98.05  E-value=7.9e-05  Score=72.53  Aligned_cols=158  Identities=13%  Similarity=0.124  Sum_probs=91.0

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIR  227 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  227 (863)
                      +++||.+..++++..++..     ...+-+.++|++|+||||+|+.+++..   ...   .+.++.+.......+.. ++
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~---~~~~~~~~~~~~~~~~~-~~   81 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTN---IHVTSGPVLVKQGDMAA-IL   81 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHHH-HH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCC---cccccCcccccHHHHHH-HH
Confidence            6789999999999988843     334567899999999999999999876   222   23344444333333222 22


Q ss_pred             HHcCCCcccccccChhhHHHHHHHHhccCcEEEEEcccccccc---------ccc-----------ccccCCCCCCCeEE
Q 038405          228 KKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLD---------LSK-----------TGVSLSDCQNGSKI  287 (863)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~-----------~~~~l~~~~~gs~i  287 (863)
                      ..                        .+++..+++|.+.....         .+.           .........+...+
T Consensus        82 ~~------------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          82 TS------------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HH------------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             Hh------------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence            11                        12334445555443210         000           00000011223455


Q ss_pred             EEeecchhhh-------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChHHHH
Q 038405          288 VFTTRSEEVC-------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPLALI  344 (863)
Q Consensus       288 ivTTr~~~v~-------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  344 (863)
                      |.+|......             ++..+.++...++...+.....   ...++....|++.++|.+-.+.
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccc---hhhHHHHHHHHHhCCCCHHHHH
Confidence            5555544332             6778888888888876654322   1225678899999999875443

>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=97.99  E-value=0.0003  Score=68.23  Aligned_cols=46  Identities=20%  Similarity=0.353  Sum_probs=38.7

Q ss_pred             ccccchhhHHHHHHHhhcc-----CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIED-----QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++||-+..++++..++..     ...+-+.++|++|+||||+|+.+++..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999998888742     335667899999999999999999876

>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=97.88  E-value=4.6e-05  Score=72.43  Aligned_cols=106  Identities=19%  Similarity=0.137  Sum_probs=63.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      ..+.|||.+|+|||.|++++++...   .....+++++      ..++...+.+.+...       ..    ..+.+.++
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~------~~~~~~~~~~~~~~~-------~~----~~~~~~~~   96 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSS------ADDFAQAMVEHLKKG-------TI----NEFRNMYK   96 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEE------HHHHHHHHHHHHHHT-------CH----HHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEec------hHHHHHHHHHHHHcc-------ch----hhHHHHHh
Confidence            4478999999999999999999872   2334566664      334444454443211       11    12222233


Q ss_pred             cCcEEEEEcccccc---ccccc-ccccCC-CCCCCeEEEEeecchhhhcccC
Q 038405          255 RKKFVLLLDDVWER---LDLSK-TGVSLS-DCQNGSKIVFTTRSEEVCVECL  301 (863)
Q Consensus       255 ~k~~LlVlDdv~~~---~~~~~-~~~~l~-~~~~gs~iivTTr~~~v~l~~L  301 (863)
                       .--+|++||+...   ..|+. +...+. ....|.+||+||+.....+..+
T Consensus        97 -~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~  147 (213)
T d1l8qa2          97 -SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  147 (213)
T ss_dssp             -TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             -hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhcccc
Confidence             3568999999753   33443 222221 1245778999999876665443

>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=97.85  E-value=2.9e-05  Score=76.55  Aligned_cols=161  Identities=12%  Similarity=0.140  Sum_probs=91.8

Q ss_pred             ccccchhhHHHHHHHhh----cc---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCI----ED---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L----~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      ++++|.++.+++|.+.+    ..         ...+-|.++|++|+|||++|+++++..   ..+   .+.++.+     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~-----   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEch-----
Confidence            45789999988888764    21         234668999999999999999999876   222   2222211     


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc---------c----cccccccC--CCCCCC
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL---------D----LSKTGVSL--SDCQNG  284 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---------~----~~~~~~~l--~~~~~g  284 (863)
                       .+        ....   ...........+...-..++.+|++||++...         .    ...+....  .....+
T Consensus        73 -~l--------~~~~---~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (258)
T d1e32a2          73 -EI--------MSKL---AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  140 (258)
T ss_dssp             -HH--------TTSC---TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC
T ss_pred             -hh--------cccc---cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC
Confidence             11        0000   11111222222233335688999999997531         0    11111111  122334


Q ss_pred             eEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          285 SKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       285 s~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      --||.||....-.               +...+.++-.++|...........+.+    ...|++.+.|.-
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  207 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  207 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCC
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCC
Confidence            4556688766543               666677888888887765433222222    467889998864

>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=97.81  E-value=3.8e-05  Score=75.10  Aligned_cols=161  Identities=13%  Similarity=0.150  Sum_probs=89.6

Q ss_pred             ccccchhhHHHHHHHhh---cc---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCI---ED---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      .+++|.++.+++|.+.+   ..         ...+-+.++|++|+|||++|+.+++..   ..+   .+.+..++-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~---~~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC---EEEEEhHHhhh--
Confidence            56889988887776543   21         224668899999999999999999876   222   22232221110  


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc------------c----cccccccCC--CCC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL------------D----LSKTGVSLS--DCQ  282 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------------~----~~~~~~~l~--~~~  282 (863)
                                     .+...+...+...+...-+..+++|++||++.-.            .    +..+...+.  ...
T Consensus        84 ---------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence                           0011222222222333334678899999996410            0    111111111  123


Q ss_pred             CCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          283 NGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       283 ~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      .+--||.||......               +...+.++-.++|+..........+.+    ...+++.+.|..
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFS  217 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCC
Confidence            344455577754432               566677887888887764433222222    356777888865

>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=97.79  E-value=7.2e-05  Score=72.74  Aligned_cols=160  Identities=12%  Similarity=0.173  Sum_probs=87.1

Q ss_pred             ccccchhhHHHHHHHhh---cc---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH
Q 038405          153 EKTVGADSKLDEVWGCI---ED---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE  220 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  220 (863)
                      ++++|.++.+++|.+.+   ..         ...+-|.++|++|+|||++|+.+++..   ...   .+.+..      .
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~---~~~i~~------~   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASG------S   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEH------H
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCC---EEEEEh------H
Confidence            46789888776665533   21         224568999999999999999999876   222   223322      1


Q ss_pred             HHHHHHHHHcCCCcccccccChhhHHHHHHHH-hccCcEEEEEccccccc----------------ccccccccCC--CC
Q 038405          221 KIQEVIRKKLDISDYIWNMKGEYDRAVEILIS-LRRKKFVLLLDDVWERL----------------DLSKTGVSLS--DC  281 (863)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~----------------~~~~~~~~l~--~~  281 (863)
                      .+.    ...       ... .+.....+.+. -+..+++|++||++...                .+..+...+.  ..
T Consensus        77 ~l~----~~~-------~g~-~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  144 (247)
T d1ixza_          77 DFV----EMF-------VGV-GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  144 (247)
T ss_dssp             HHH----HSC-------TTH-HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             Hhh----hcc-------ccH-HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence            111    110       111 11222233332 24578899999986310                0111111111  11


Q ss_pred             CCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCCh
Q 038405          282 QNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLP  340 (863)
Q Consensus       282 ~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glP  340 (863)
                      ..+.-||-||....-.               +...+.++-.++|+..........+.+    ...+++.+.|..
T Consensus       145 ~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         145 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCC
Confidence            2232233466544322               666788888899988775433222223    356677888764

>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=97.75  E-value=5.1e-06  Score=75.73  Aligned_cols=86  Identities=23%  Similarity=0.178  Sum_probs=63.6

Q ss_pred             hhhhhcCCCccEEeccCCcCcccc---chhhhcccccceeeccCCCccccchh-hhcccCccEEecCCCCCccccc----
Q 038405          538 HRFFESMGALKVLDLSYNLDLTQL---PAEMGALINLRCLNLSNTSIEELPSE-IMYLKNLKILLLDGMRHFHLIP----  609 (863)
Q Consensus       538 ~~~~~~l~~L~~L~Ls~~~~i~~l---p~~i~~L~~L~~L~L~~~~i~~lP~~-i~~L~~L~~L~l~~~~~l~~lp----  609 (863)
                      ...+..++.|++|+|++| .++.+   +..+..+++|++|+|++|.|+.+++- .....+|+.|++++|.......    
T Consensus        58 ~~~~~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~  136 (162)
T d1koha1          58 RIIEENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQST  136 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHH
T ss_pred             HHHHHhCCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchh
Confidence            344667899999999999 66655   45577899999999999999988762 3344578999999997433222    


Q ss_pred             --hhhhcCCCCCceeec
Q 038405          610 --ARVFSSLLSLKVFSL  624 (863)
Q Consensus       610 --~~~i~~L~~L~~L~l  624 (863)
                        ..++..+++|+.|+-
T Consensus       137 y~~~i~~~~P~L~~LDg  153 (162)
T d1koha1         137 YISAIRERFPKLLRLDG  153 (162)
T ss_dssp             HHHHHHTTSTTCCEETT
T ss_pred             HHHHHHHHCCCCCEECc
Confidence              134667888888863

>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=97.66  E-value=6.7e-05  Score=77.69  Aligned_cols=145  Identities=14%  Similarity=0.168  Sum_probs=79.6

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcccc--c-cCCCCEEEE-EEeCCCCCHHHHHHHHHH
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLD--V-NHCFDLVIF-VAVSKEGNLEKIQEVIRK  228 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~-~~~F~~~~w-v~~~~~~~~~~~~~~i~~  228 (863)
                      +++|||+++++++++.|....-.-+.++|.+|+|||+++..++.+...  + ..-.+.++| ++++.-          +.
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            347899999999999997644444678899999999988777765421  1 122344555 332211          10


Q ss_pred             HcCCCcccccccChhhHHHHHHHHhcc--CcEEEEEccccccc---------ccccccccCCCCCCCeEEEEeecchhhh
Q 038405          229 KLDISDYIWNMKGEYDRAVEILISLRR--KKFVLLLDDVWERL---------DLSKTGVSLSDCQNGSKIVFTTRSEEVC  297 (863)
Q Consensus       229 ~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~---------~~~~~~~~l~~~~~gs~iivTTr~~~v~  297 (863)
                      ..  .    -....++....+...+..  .+++|++|++....         +...+..|....+ .-++|.||...+..
T Consensus        92 g~--~----~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg-~~~~I~~tT~~ey~  164 (387)
T d1qvra2          92 GA--K----YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-ELRLIGATTLDEYR  164 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT-CCCEEEEECHHHHH
T ss_pred             cc--C----cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC-CcceeeecCHHHHH
Confidence            00  0    122445555555555533  47899999987531         2222222221111 24677766655443


Q ss_pred             ----------------cccCCHHHHHHHHhHhh
Q 038405          298 ----------------VECLSPEAALDLFRYKV  314 (863)
Q Consensus       298 ----------------l~~L~~~~a~~Lf~~~~  314 (863)
                                      ++..+.+++..++....
T Consensus       165 ~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         165 EIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence                            67777788777776543

>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=97.57  E-value=3.4e-05  Score=76.19  Aligned_cols=162  Identities=12%  Similarity=0.157  Sum_probs=87.4

Q ss_pred             ccccchhhHHHHHHHhhc----c---------CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH
Q 038405          153 EKTVGADSKLDEVWGCIE----D---------QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL  219 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  219 (863)
                      .+++|.++.+++|.+.+.    .         ...+-|.++|++|.|||+||+++++..   ..+     ++.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~-----~~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCE-----EEEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCc-----EEEEE----H
Confidence            456788777666665542    1         234568899999999999999999887   222     22222    1


Q ss_pred             HHHHHHHHHHcCCCcccccccChhhHHHHHHHHhccCcEEEEEccccccc--------c--------cccccccCC--CC
Q 038405          220 EKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERL--------D--------LSKTGVSLS--DC  281 (863)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--------~--------~~~~~~~l~--~~  281 (863)
                      ..+    ....       .......+...+...-...+++|++||++...        .        ...+...+.  ..
T Consensus        75 ~~l----~~~~-------~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          75 PEL----LTMW-------FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             HHH----HTSC-------TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             HHh----hhcc-------ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence            111    1100       11112222222333334678999999997421        0        111222221  12


Q ss_pred             CCCeEEEEeecchhhh---------------cccCCHHHHHHHHhHhhCccccCCCCChHHHHHHHHHHcCCChH
Q 038405          282 QNGSKIVFTTRSEEVC---------------VECLSPEAALDLFRYKVGEDVFNSHPEIPTLAQAVVGECKGLPL  341 (863)
Q Consensus       282 ~~gs~iivTTr~~~v~---------------l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~~~i~~~c~glPL  341 (863)
                      .++--||.||....-.               +...+.++-.++|+..........+.+    ..++++++.|...
T Consensus       144 ~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~  214 (265)
T d1r7ra3         144 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSG  214 (265)
T ss_dssp             --CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCC
T ss_pred             CCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCCH
Confidence            2344556677655432               667788888888887664332212222    3567777777653

>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=97.49  E-value=0.00016  Score=70.20  Aligned_cols=46  Identities=17%  Similarity=0.077  Sum_probs=34.9

Q ss_pred             ccccchhhHHHHHHHhhc-------c---CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          153 EKTVGADSKLDEVWGCIE-------D---QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+||..+.++.+++...       .   ...+-|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            357787777776665442       1   234568899999999999999999876

>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=97.46  E-value=2.9e-05  Score=70.54  Aligned_cols=78  Identities=22%  Similarity=0.151  Sum_probs=62.4

Q ss_pred             CCCccEEEeecccccccch--hhhhcCCCccEEeccCCcCccccch-hhhcccccceeeccCCCccccc--------hhh
Q 038405          520 CPHLQTLLVRFTVLEIFPH--RFFESMGALKVLDLSYNLDLTQLPA-EMGALINLRCLNLSNTSIEELP--------SEI  588 (863)
Q Consensus       520 ~~~Lr~L~l~~~~l~~l~~--~~~~~l~~L~~L~Ls~~~~i~~lp~-~i~~L~~L~~L~L~~~~i~~lP--------~~i  588 (863)
                      +++|++|++++|.++.++.  ..+..+++|++|+|++| .++.+++ ......+|+.|++++|.+....        ..+
T Consensus        64 ~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~  142 (162)
T d1koha1          64 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIR  142 (162)
T ss_dssp             CTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHH
T ss_pred             CCCCCEeeCCCccccCCchhHHHHhhCCcccccccccC-ccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHHH
Confidence            7899999999998887753  45788999999999999 8888776 2334567999999999887543        235


Q ss_pred             hcccCccEEe
Q 038405          589 MYLKNLKILL  598 (863)
Q Consensus       589 ~~L~~L~~L~  598 (863)
                      ..+++|+.||
T Consensus       143 ~~~P~L~~LD  152 (162)
T d1koha1         143 ERFPKLLRLD  152 (162)
T ss_dssp             TTSTTCCEET
T ss_pred             HHCCCCCEEC
Confidence            6799999986

>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=97.09  E-value=0.00076  Score=62.75  Aligned_cols=115  Identities=14%  Similarity=0.061  Sum_probs=68.6

Q ss_pred             HHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcccc-ccCCCCEEEEEEeC-CCCCHHHHHHHHHHHcCCCccccc
Q 038405          161 KLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLD-VNHCFDLVIFVAVS-KEGNLEKIQEVIRKKLDISDYIWN  238 (863)
Q Consensus       161 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~  238 (863)
                      .++-+..++.......+.++|.+|+||||+|..+.+.... ...|.|. .++... ....++++. ++.+.+....    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~IR-~i~~~~~~~~----   75 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDIR-TIKDFLNYSP----   75 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHHH-HHHHHHTSCC----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHHH-HHHHHHhhCc----
Confidence            3455666777778899999999999999999998875511 1223333 333321 122333332 2333333221    


Q ss_pred             ccChhhHHHHHHHHhccCcEEEEEcccccc--cccccccccCCCCCCCeEEEEeecchh
Q 038405          239 MKGEYDRAVEILISLRRKKFVLLLDDVWER--LDLSKTGVSLSDCQNGSKIVFTTRSEE  295 (863)
Q Consensus       239 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~~~~~l~~~~~gs~iivTTr~~~  295 (863)
                                    ..+++-++|+|+++..  .....+...+-...+++.+|++|.+..
T Consensus        76 --------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          76 --------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             --------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             --------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence                          1245568999999864  344455444444456788877777654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.47  E-value=0.0017  Score=58.57  Aligned_cols=83  Identities=12%  Similarity=0.085  Sum_probs=43.7

Q ss_pred             CCCccEEEeecc-ccccc--c--hhhhhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCccc-----c
Q 038405          520 CPHLQTLLVRFT-VLEIF--P--HRFFESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIEE-----L  584 (863)
Q Consensus       520 ~~~Lr~L~l~~~-~l~~l--~--~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~~-----l  584 (863)
                      .++|+.|+++++ .+..-  .  ...+...+.|++|+|++| .+.     .+...+...+.|++|+|++|.|..     +
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n-~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc-ccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            355666666653 22210  0  112445566777777766 332     223334455667777777766552     3


Q ss_pred             chhhhcccCccEEecCCCC
Q 038405          585 PSEIMYLKNLKILLLDGMR  603 (863)
Q Consensus       585 P~~i~~L~~L~~L~l~~~~  603 (863)
                      -..+..-+.|++|++++|.
T Consensus        93 ~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCS
T ss_pred             HHHHHhCCcCCEEECCCCc
Confidence            3344555667777776653

>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=96.43  E-value=0.0057  Score=56.68  Aligned_cols=88  Identities=20%  Similarity=0.246  Sum_probs=53.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHH--HHHHHHHHHcCCCcccccccChhhHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLE--KIQEVIRKKLDISDYIWNMKGEYDRAVEI  249 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~~~~l  249 (863)
                      ....||.++|+.|+||||.+.+++.... . .  ...+.+-..+.+...  +-++...+.++.+..  ...+..+....+
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~-~-~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~--~~~~~~d~~~~l   80 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE-Q-Q--GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVI--AQHTGADSASVI   80 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH-T-T--TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEE--CCSTTCCHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H-C--CCcEEEEecccccccchhhhhhhhhhcCCccc--ccccCCCHHHHH
Confidence            4468999999999999987777777662 2 2  234555555676664  446677788887653  233333444434


Q ss_pred             HHH---hccCcE-EEEEccc
Q 038405          250 LIS---LRRKKF-VLLLDDV  265 (863)
Q Consensus       250 ~~~---l~~k~~-LlVlDdv  265 (863)
                      ++.   .+.+.+ ++++|=.
T Consensus        81 ~~~~~~a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          81 FDAIQAAKARNIDVLIADTA  100 (211)
T ss_dssp             HHHHHHHHHTTCSEEEECCC
T ss_pred             HHHHHHHHHcCCCEEEeccC
Confidence            333   222333 6667765

>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=96.38  E-value=0.0007  Score=62.53  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.|+|.|+.|+||||||+.++...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999876

>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=96.37  E-value=0.00074  Score=61.95  Aligned_cols=37  Identities=19%  Similarity=0.056  Sum_probs=28.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      +-.+|.|+|++|+||||+|+.++.+..  ...++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhh
Confidence            346899999999999999999998872  2344555554

>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=96.34  E-value=0.00075  Score=61.18  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++||+|+|..|+|||||++++.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999999876

>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=96.25  E-value=0.00073  Score=60.90  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.++|++|+||||+|+.++.+.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468889999999999999999876

>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=96.19  E-value=0.0011  Score=58.93  Aligned_cols=24  Identities=29%  Similarity=0.195  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.|+|++|+||||+|+++....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987654

>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=96.18  E-value=0.006  Score=59.02  Aligned_cols=87  Identities=15%  Similarity=0.024  Sum_probs=58.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|.+|+||||+|.+++....   ..=..++|++.-..++...     ++.++...+..   +..+.++....+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            347999999999999999999887762   2224579999888888643     56667654322   223445555444


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ ++.-|||+|.+-.
T Consensus       125 ~~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEECccc
Confidence            44444 3445889998853

>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=96.14  E-value=0.0082  Score=58.05  Aligned_cols=88  Identities=15%  Similarity=0.130  Sum_probs=59.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVE  248 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~  248 (863)
                      +.-+++-|+|.+|+||||+|.+++...   ...-..++|++.-..++.+.     +++++...+..   +..+.++....
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~---q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~  129 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEI  129 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHH---HHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHH---hcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHH
Confidence            346899999999999999998887765   22234689999988888765     45556554321   23345555554


Q ss_pred             HHHHhc-cCcEEEEEccccc
Q 038405          249 ILISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       249 l~~~l~-~k~~LlVlDdv~~  267 (863)
                      +....+ ++.-|||+|.+-.
T Consensus       130 ~~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         130 ADMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHHTTCEEEEEEECSTT
T ss_pred             HHHHHhcCCCCEEEEecccc
Confidence            444444 4577899999853

>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=96.13  E-value=0.0012  Score=60.11  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.|.|++|+||||+|+.+....
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            679999999999999999998765

>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=96.00  E-value=0.0026  Score=59.11  Aligned_cols=28  Identities=21%  Similarity=0.411  Sum_probs=24.6

Q ss_pred             cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          171 DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       171 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+.-+|||.|.+|+||||||+.+....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3556689999999999999999998876

>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=95.97  E-value=0.0085  Score=58.00  Aligned_cols=87  Identities=14%  Similarity=0.084  Sum_probs=61.3

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccc---cccChhhHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIW---NMKGEYDRAVEI  249 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  249 (863)
                      .-+++-|+|.+|+||||+|.+++... ...+  ..++|++.-..++.+     +++.++...+..   +..+.++....+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            45799999999999999999988776 2222  458999988888874     567777765432   234555555555


Q ss_pred             HHHhc-cCcEEEEEccccc
Q 038405          250 LISLR-RKKFVLLLDDVWE  267 (863)
Q Consensus       250 ~~~l~-~k~~LlVlDdv~~  267 (863)
                      ....+ ++.-|||+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            44444 3566899998854

>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=95.93  E-value=0.0013  Score=59.74  Aligned_cols=24  Identities=46%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|.|.|++|+||||+|+.++.+.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999876

>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=95.85  E-value=0.012  Score=56.54  Aligned_cols=102  Identities=17%  Similarity=0.218  Sum_probs=63.2

Q ss_pred             HHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCC-CHHHHHHHHHHHcCC--C----cc
Q 038405          164 EVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEG-NLEKIQEVIRKKLDI--S----DY  235 (863)
Q Consensus       164 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~--~----~~  235 (863)
                      ++++.+.. ..-+-++|+|..|+|||+|+..+.+...  +.+=+.++++-+++.. ...++.+++.+.--.  .    ..
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~t  134 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKV  134 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceE
Confidence            34555533 2334599999999999999999987741  3445678898888764 356677777663211  0    00


Q ss_pred             c-c---cccChh------hHHHHHHHHhc---cCcEEEEEccccc
Q 038405          236 I-W---NMKGEY------DRAVEILISLR---RKKFVLLLDDVWE  267 (863)
Q Consensus       236 ~-~---~~~~~~------~~~~~l~~~l~---~k~~LlVlDdv~~  267 (863)
                      . .   ......      ..+..+.++++   ++.+|+++||+-.
T Consensus       135 vvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         135 ALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence            0 0   011111      12234567664   6899999999854

>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=95.82  E-value=0.014  Score=53.83  Aligned_cols=60  Identities=22%  Similarity=0.190  Sum_probs=41.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC-CCHHHHHHHHHHHcCCCc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE-GNLEKIQEVIRKKLDISD  234 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~  234 (863)
                      ++.+||.++|+.|+||||.+.+++.... ..+  ..+..++.... ....+-++...+.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH-TTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC--CcEEEEEeccccccchhhHhhcccccCceE
Confidence            3568999999999999987777777662 222  35667665542 345566777888888764

>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=95.81  E-value=0.0023  Score=57.56  Aligned_cols=24  Identities=25%  Similarity=0.199  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +||+|+|..|+|||||+.++....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999877

>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=95.75  E-value=0.0016  Score=59.77  Aligned_cols=24  Identities=38%  Similarity=0.535  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|+|++|+|||||+++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            568999999999999999999877

>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=95.73  E-value=0.0022  Score=59.50  Aligned_cols=27  Identities=22%  Similarity=0.192  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....+|.|+|++|+||||+|+.++.+.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999876

>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=95.73  E-value=0.006  Score=54.82  Aligned_cols=88  Identities=18%  Similarity=0.091  Sum_probs=62.8

Q ss_pred             hhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCcc-----ccchhhhcccCccEEecCCCCCccccch
Q 038405          541 FESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIE-----ELPSEIMYLKNLKILLLDGMRHFHLIPA  610 (863)
Q Consensus       541 ~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~-----~lP~~i~~L~~L~~L~l~~~~~l~~lp~  610 (863)
                      ..+.+.|+.|+|+++..+.     .+-..+...++|++|+|++|.+.     .+...+...+.|++|++++|.....-..
T Consensus        11 ~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~   90 (167)
T d1pgva_          11 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLA   90 (167)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHH
T ss_pred             HhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHH
Confidence            4456899999999863443     23345667788999999999876     3445567788999999999973221111


Q ss_pred             ---hhhcCCCCCceeeccCcc
Q 038405          611 ---RVFSSLLSLKVFSLFSTE  628 (863)
Q Consensus       611 ---~~i~~L~~L~~L~l~~~~  628 (863)
                         ..+...++|++|++.+|.
T Consensus        91 ~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          91 RLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             HHHHHTTTTCCCSEEECCCCS
T ss_pred             HHHHHHHhCCcCCEEECCCCc
Confidence               126677889999998764

>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=95.73  E-value=0.0023  Score=58.21  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.|.|.+|+||||+|+.++...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4789999999999999999999876

>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=95.72  E-value=0.0016  Score=60.51  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.+|.++|++|+||||+|+.++...
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999999876

>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=95.67  E-value=0.0026  Score=59.11  Aligned_cols=27  Identities=26%  Similarity=0.239  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +..+||.|.|++|+||||+|+.++.++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999876

>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=95.60  E-value=0.003  Score=57.05  Aligned_cols=27  Identities=19%  Similarity=0.369  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+++.|.|++|+||||+|+.+..+.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999999999999999998876

>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=95.58  E-value=0.0049  Score=61.65  Aligned_cols=45  Identities=29%  Similarity=0.407  Sum_probs=34.8

Q ss_pred             cccchhhHHHHHHHhhc-------c--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE-------D--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~-------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|.++.++.+...+.       +  ....++.++|+.|+|||.+|+.++...
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            36798888888877662       1  224478899999999999999988764

>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=95.57  E-value=0.0024  Score=57.55  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.++|++|+||||+|+.++.+.
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4466999999999999999887

>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=95.55  E-value=0.0031  Score=57.08  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ....|.|.|++|+||||+|+.++.+.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34568999999999999999999876

>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=95.55  E-value=0.0024  Score=57.22  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+||+|+||||+|+.++.+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999887

>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=95.54  E-value=0.0026  Score=58.50  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|+|.|+.|+||||+++.++...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998876

>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=95.49  E-value=0.003  Score=57.37  Aligned_cols=26  Identities=27%  Similarity=0.229  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +-++|.|.|++|+||||+|+.+....
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34789999999999999999998765

>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=95.38  E-value=0.023  Score=52.50  Aligned_cols=59  Identities=17%  Similarity=0.147  Sum_probs=39.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISDY  235 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~  235 (863)
                      +.+||.++|+.|+||||.+.+++.... . .. ..+..++. +.+..  .+-++...+.++.+..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~-~-~g-~kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~~   69 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK-G-KG-RRPLLVAA-DTQRPAAREQLRLLGEKVGVPVL   69 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-H-TT-CCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-H-CC-CcEEEEec-ccccchHHHHHHHHHHhcCCccc
Confidence            457899999999999988777777662 2 22 23555554 44443  3445667777777643

>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=95.31  E-value=0.005  Score=61.65  Aligned_cols=45  Identities=18%  Similarity=0.259  Sum_probs=34.6

Q ss_pred             cccchhhHHHHHHHhhc--------------cCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE--------------DQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~--------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|-++.++.+...+.              ....+-+.++|++|+|||.||+++++..
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            36788888877765441              0134667899999999999999999875

>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=95.30  E-value=0.0055  Score=60.09  Aligned_cols=26  Identities=27%  Similarity=0.193  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+.|.++|++|+||||||+.+++..
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45668899999999999999999876

>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=95.30  E-value=0.0031  Score=57.08  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.++|++|+||||+|+.++.+.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            346788999999999999999887

>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=95.29  E-value=0.0046  Score=55.86  Aligned_cols=27  Identities=19%  Similarity=0.276  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +...+|.++|++|+||||+|+.+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            345789999999999999999887654

>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=95.26  E-value=0.02  Score=54.75  Aligned_cols=41  Identities=20%  Similarity=0.182  Sum_probs=33.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      .-.++.|+|.+|+|||++|.+++.+.   ......++|++....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES   65 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC
Confidence            45789999999999999999999886   455667888886544

>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=95.21  E-value=0.0039  Score=58.62  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.++|.+|+||||+|++++...
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999766

>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=95.14  E-value=0.022  Score=52.64  Aligned_cols=59  Identities=19%  Similarity=0.140  Sum_probs=34.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISD  234 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~  234 (863)
                      ....||.++|+.|+||||.+..++.... . ... .+..|+... +..  .+-++...+.++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~-~g~-kV~lit~Dt-~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-K-KGF-KVGLVGADV-YRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-H-TTC-CEEEEECCC-SSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H-CCC-ceEEEEeec-cccchhHHHHHhccccCcce
Confidence            3568999999999999987766666662 2 222 466666543 333  334556667777664

>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=95.12  E-value=0.0095  Score=53.39  Aligned_cols=106  Identities=15%  Similarity=0.130  Sum_probs=55.6

Q ss_pred             CCCccEEEeecc-cccccc----hhhhhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCcc-----cc
Q 038405          520 CPHLQTLLVRFT-VLEIFP----HRFFESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIE-----EL  584 (863)
Q Consensus       520 ~~~Lr~L~l~~~-~l~~l~----~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~-----~l  584 (863)
                      .++|+.|.+.++ .+..-.    ...+...++|+.|+|++| .+.     .+-..+.....|+.|++++|.+.     .+
T Consensus        16 ~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l   94 (166)
T d1io0a_          16 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL   94 (166)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             CCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccccchhHHHH
Confidence            356666666653 222110    112445667777777777 332     22333455667777777777654     33


Q ss_pred             chhhhcccCccEEecCCCC-Ccc-----ccchhhhcCCCCCceeeccCc
Q 038405          585 PSEIMYLKNLKILLLDGMR-HFH-----LIPARVFSSLLSLKVFSLFST  627 (863)
Q Consensus       585 P~~i~~L~~L~~L~l~~~~-~l~-----~lp~~~i~~L~~L~~L~l~~~  627 (863)
                      ...+...++|+.++|..+. .+.     .+.. ++.+.++|++|++..+
T Consensus        95 ~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~-~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          95 VEALQSNTSLIELRIDNQSQPLGNNVEMEIAN-MLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHHH-HHHHCSSCCEEECCCS
T ss_pred             HHHHHhCccccEEeeccCCCcCcHHHHHHHHH-HHHhCCCcCEEeCcCC
Confidence            4455666677766554332 111     1221 2445667777766543

>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=94.95  E-value=0.0091  Score=58.79  Aligned_cols=52  Identities=23%  Similarity=0.181  Sum_probs=37.6

Q ss_pred             HHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          162 LDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       162 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      +..+.+.+...+.+||.+.|-||+||||+|..++.... ..+  ..++-|.....
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA-~~G--~rVllvD~Dp~   59 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA-DMG--FDVHLTTSDPA   59 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEESCCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC--CcEEEEeCCCC
Confidence            45667777788899999999999999999888777662 222  23566665533

>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=94.93  E-value=0.0051  Score=55.91  Aligned_cols=22  Identities=45%  Similarity=0.578  Sum_probs=20.5

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |+|+|..|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            8999999999999999999765

>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=94.88  E-value=0.0053  Score=58.23  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=23.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+||+|.|++|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999999987

>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=94.88  E-value=0.0056  Score=57.63  Aligned_cols=24  Identities=25%  Similarity=0.231  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -||||.|..|+||||+|+.+....
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999999999988776

>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=94.82  E-value=0.0084  Score=55.06  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.|.|++|+||||+|+.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999887

>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=94.78  E-value=0.03  Score=51.80  Aligned_cols=59  Identities=17%  Similarity=0.182  Sum_probs=39.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCH--HHHHHHHHHHcCCCc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNL--EKIQEVIRKKLDISD  234 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~  234 (863)
                      ....||.++|+.|+||||-+.+++.+.. .++  ..+..++... +..  .+-++...+.++.+.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~--~kV~lit~Dt-~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEG--KSVVLAAADT-FRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HTT--CCEEEEEECT-TCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC--CceEEEeecc-cccchhHHHHHHhhhcCccc
Confidence            3457999999999999987777776662 222  3466666553 333  344666677777654

>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=94.61  E-value=0.012  Score=54.95  Aligned_cols=30  Identities=30%  Similarity=0.396  Sum_probs=25.5

Q ss_pred             hccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          169 IEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       169 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .......||-+.|++|+||||||+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344567899999999999999999998765

>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=94.52  E-value=0.0079  Score=55.52  Aligned_cols=24  Identities=25%  Similarity=0.247  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|.|++|+||||.|+.++.+.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999876

>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=94.50  E-value=0.013  Score=57.27  Aligned_cols=37  Identities=22%  Similarity=0.432  Sum_probs=28.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeC
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVS  214 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  214 (863)
                      +.|+|+|-||+||||+|..++.... . ..+ .++-|+..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA-~-~G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH-A-MGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH-T-TTC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH-h-CCC-cEEEEecC
Confidence            7899999999999999999888773 2 223 45555654

>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=94.47  E-value=0.029  Score=55.17  Aligned_cols=80  Identities=10%  Similarity=-0.102  Sum_probs=44.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCC--CEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCF--DLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEIL  250 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  250 (863)
                      ..-+|||.|.+|+||||+|+.+....   ...+  ..+.-++...-+.....+..  ..+......+..-+.+.+...+.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL---~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~  153 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL---SRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVS  153 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH---TTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH---hhhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHH
Confidence            34689999999999999999998776   2222  22444443333222222211  11111111223456677777666


Q ss_pred             HHhccCc
Q 038405          251 ISLRRKK  257 (863)
Q Consensus       251 ~~l~~k~  257 (863)
                      ....++.
T Consensus       154 ~lk~g~~  160 (308)
T d1sq5a_         154 DLKSGVP  160 (308)
T ss_dssp             HHTTTCS
T ss_pred             HHHcCCC
Confidence            6655543

>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=94.42  E-value=0.0088  Score=55.00  Aligned_cols=25  Identities=32%  Similarity=0.409  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++| |+|++|+||||+|+.++.+.
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999999876

>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=94.28  E-value=0.019  Score=51.36  Aligned_cols=88  Identities=13%  Similarity=0.089  Sum_probs=61.2

Q ss_pred             hhhhhcCCCccEEeccCCcCcc-----ccchhhhcccccceeeccCCCcc-----ccchhhhcccCccEEecCCCCCccc
Q 038405          538 HRFFESMGALKVLDLSYNLDLT-----QLPAEMGALINLRCLNLSNTSIE-----ELPSEIMYLKNLKILLLDGMRHFHL  607 (863)
Q Consensus       538 ~~~~~~l~~L~~L~Ls~~~~i~-----~lp~~i~~L~~L~~L~L~~~~i~-----~lP~~i~~L~~L~~L~l~~~~~l~~  607 (863)
                      ..+..+.+.|++|+|+++..++     .+-..+...++|++|++++|.+.     .+-..+...++|+.|++++|.....
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            3445677899999999853443     23445567899999999999876     3445567788999999998863221


Q ss_pred             ----cchhhhcCCCCCceeeccC
Q 038405          608 ----IPARVFSSLLSLKVFSLFS  626 (863)
Q Consensus       608 ----lp~~~i~~L~~L~~L~l~~  626 (863)
                          +... +...++|+.+++..
T Consensus        90 g~~~l~~~-l~~~~~L~~l~L~l  111 (166)
T d1io0a_          90 GILALVEA-LQSNTSLIELRIDN  111 (166)
T ss_dssp             HHHHHHHG-GGGCSSCCEEECCC
T ss_pred             hHHHHHHH-HHhCccccEEeecc
Confidence                2222 56678888777653

>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=94.24  E-value=0.009  Score=56.50  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -+|+|-|++|+||||+|+.++.++
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999999987

>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=94.21  E-value=0.074  Score=51.11  Aligned_cols=90  Identities=10%  Similarity=0.097  Sum_probs=52.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCccc----ccccC------hh
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYI----WNMKG------EY  243 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~----~~~~~------~~  243 (863)
                      .-++|+|..|+|||+|+.......   ..+-+.++++-+.+... ..++..++.+.=......    .....      ..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            448999999999999998765544   34456788888877643 333333333321110000    00111      11


Q ss_pred             hHHHHHHHHhc--cCcEEEEEccccc
Q 038405          244 DRAVEILISLR--RKKFVLLLDDVWE  267 (863)
Q Consensus       244 ~~~~~l~~~l~--~k~~LlVlDdv~~  267 (863)
                      ..+..+.++++  ++++|+++||+-.
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHcCCceeEEeeccHH
Confidence            23345556653  6899999999854

>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=94.16  E-value=0.02  Score=57.15  Aligned_cols=53  Identities=23%  Similarity=0.130  Sum_probs=29.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      .+..+|||+|.+|+|||||...+..... ..++=-.++=+..+.+++-..++.+
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~-~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLI-REGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCC-----------
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHH-hcCCceeeecCCCceeeeccccccc
Confidence            5688999999999999999999887662 1221113333444444554445443

>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=94.13  E-value=0.0095  Score=54.24  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=20.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|.|++|+||||+|+.++.+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998876

>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=94.11  E-value=0.01  Score=54.44  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -.|.|.|++|+||||+|+.++.+.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            346688999999999999999876

>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=94.01  E-value=0.012  Score=54.32  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++|.|.|++|+||||+|+.++.+.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998876

>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=93.99  E-value=0.012  Score=53.41  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++ .|.|++|+||||+|+.++.+.
T Consensus         3 mrI-vl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRM-VLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEE-EEECCTTSSHHHHHHHHHHHH
T ss_pred             eEE-EEECCCCCCHHHHHHHHHHHh
Confidence            444 477999999999999999876

>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=93.93  E-value=0.011  Score=54.40  Aligned_cols=23  Identities=22%  Similarity=0.222  Sum_probs=20.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|++|+||||+|+.++++.
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999999998876

>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=93.91  E-value=0.011  Score=54.23  Aligned_cols=24  Identities=42%  Similarity=0.555  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +-|.|+|++|+|||||++.+..+.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            447899999999999999998876

>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=93.90  E-value=0.029  Score=55.41  Aligned_cols=71  Identities=13%  Similarity=0.130  Sum_probs=41.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLR  254 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  254 (863)
                      .++.++|++|+|||.||+.++... ..+..|-   -+..++-.+               .  + ..+.+.....+.+..+
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~-~~~~~~~---~~~~~~~~~---------------~--~-~G~~e~~~~~~f~~a~  181 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL-GGKDKYA---TVRFGEPLS---------------G--Y-NTDFNVFVDDIARAML  181 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH-HTTSCCE---EEEBSCSST---------------T--C-BCCHHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh-cCCCCeE---EEEhhHhhh---------------c--c-cchHHHHHHHHHHHHh
Confidence            456678999999999999999876 1122331   133333211               0  1 1223444444444444


Q ss_pred             cCcEEEEEcccccc
Q 038405          255 RKKFVLLLDDVWER  268 (863)
Q Consensus       255 ~k~~LlVlDdv~~~  268 (863)
                       +..+|++|.++..
T Consensus       182 -~~~ilf~DEid~~  194 (321)
T d1w44a_         182 -QHRVIVIDSLKNV  194 (321)
T ss_dssp             -HCSEEEEECCTTT
T ss_pred             -hccEEEeehhhhh
Confidence             3679999999753

>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=93.85  E-value=0.012  Score=53.71  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|.|++|+||||+|+.++.+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999876

>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=93.83  E-value=0.012  Score=54.05  Aligned_cols=22  Identities=32%  Similarity=0.314  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHhhhhh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~  195 (863)
                      .-+|||+|..|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999773

>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=93.82  E-value=0.011  Score=54.43  Aligned_cols=23  Identities=43%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|.|+|++|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998775

>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=93.80  E-value=0.024  Score=56.45  Aligned_cols=37  Identities=19%  Similarity=0.402  Sum_probs=28.5

Q ss_pred             HHHHHHhh--ccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          162 LDEVWGCI--EDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       162 ~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++.+.+  ...+..+|||.|++|+|||||..++....
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            34444444  33567899999999999999999988765

>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=93.75  E-value=0.012  Score=53.46  Aligned_cols=22  Identities=36%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|.|++|+||||+|+.++...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999876

>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=93.74  E-value=0.03  Score=54.15  Aligned_cols=99  Identities=16%  Similarity=0.131  Sum_probs=54.1

Q ss_pred             HHHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE-EeCCCCCHHHHHHHHHHHcCCCcc-ccccc
Q 038405          164 EVWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV-AVSKEGNLEKIQEVIRKKLDISDY-IWNMK  240 (863)
Q Consensus       164 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv-~~~~~~~~~~~~~~i~~~l~~~~~-~~~~~  240 (863)
                      ++++.+.. ..-.-++|+|..|+|||+|+..+.+...  ..+-+.++.+ .+.+..  +++ .++.+......- .....
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~--~~~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~t~d~  106 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA--YNHPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVASTFDE  106 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHH--HHCTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEEETTS
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEeeceeH--HHH-HhHHhhcceEEEeccCCC
Confidence            56777744 4456789999999999999999988652  2333333333 333332  222 222222211100 00011


Q ss_pred             C------hhhHHHHHHHHh--ccCcEEEEEccccc
Q 038405          241 G------EYDRAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       241 ~------~~~~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                      .      ....+..+.+++  +++.+|+++||+-.
T Consensus       107 ~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         107 PASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             chhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence            1      112233455555  46899999999854

>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=93.74  E-value=0.014  Score=53.07  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998765

>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=93.71  E-value=0.03  Score=55.82  Aligned_cols=45  Identities=18%  Similarity=0.285  Sum_probs=36.0

Q ss_pred             cccchhhHHHHHHHhhc-------c--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIE-------D--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~-------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|-++.++.+...+.       +  ....++.++|+.|+|||.||+.++.-.
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            46799999888877662       1  234578899999999999999998765

>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=93.66  E-value=0.025  Score=55.87  Aligned_cols=48  Identities=19%  Similarity=0.282  Sum_probs=33.3

Q ss_pred             cCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHH
Q 038405          171 DQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       171 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~  221 (863)
                      ++..++|.+.|-||+||||+|..++.... .++  ..++-|+.....++..
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA-~~G--~rVLlvD~Dp~~~l~~   52 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLA-EQG--KRVLLVSTDPASNVGQ   52 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEECCTTCCHHH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHH-HCC--CCEEEEeCCCCCCHHH
Confidence            34568899999999999999988887762 222  2466676665444433

>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=93.53  E-value=0.14  Score=45.00  Aligned_cols=54  Identities=11%  Similarity=0.030  Sum_probs=31.1

Q ss_pred             EEEEeecchhhhcccCCHHHHHHHHhHhhC---ccccCCCCChHHHHHHHHHHcCCC
Q 038405          286 KIVFTTRSEEVCVECLSPEAALDLFRYKVG---EDVFNSHPEIPTLAQAVVGECKGL  339 (863)
Q Consensus       286 ~iivTTr~~~v~l~~L~~~~a~~Lf~~~~~---~~~~~~~~~~~~~~~~i~~~c~gl  339 (863)
                      .|||-+......-...+.+++.++....-.   .-.......+.++.+.|+++.-|+
T Consensus       108 iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l~g~  164 (164)
T d1yzqa1         108 IMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM  164 (164)
T ss_dssp             EEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHSCCC
T ss_pred             EEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhhCCC
Confidence            455556554444455667777776665421   111123346788888888876663

>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=93.43  E-value=0.017  Score=52.18  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +.|.|+|++|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999988765

>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=93.35  E-value=0.022  Score=52.43  Aligned_cols=26  Identities=27%  Similarity=0.175  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-+|+|-|..|+||||+|+.+....
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            34589999999999999999998765

>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=93.11  E-value=0.017  Score=52.33  Aligned_cols=22  Identities=32%  Similarity=0.187  Sum_probs=20.1

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|.|++|+||||+|+.++.+.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999876

>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=93.09  E-value=0.08  Score=51.11  Aligned_cols=103  Identities=12%  Similarity=0.062  Sum_probs=55.1

Q ss_pred             HHHhhcc-CCceEEEEEcCCCChHHHHhhhhhhcccccc-----CCCCEEEEEEeCCCCC-HHHHHHHHHHHcCCCcccc
Q 038405          165 VWGCIED-QSEQTIGLYGMGGVGKITLLKKPNNKFLDVN-----HCFDLVIFVAVSKEGN-LEKIQEVIRKKLDISDYIW  237 (863)
Q Consensus       165 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-----~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~  237 (863)
                      .++.|.. ..-+-++|+|.+|+|||+|+..+........     ..=..++++-+++... ..++...+.+.-.......
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            4455533 2335689999999999999887765431111     1112456777766643 3455555544322111000


Q ss_pred             ----cccChhh------HHHHHHHHh--ccCcEEEEEccccc
Q 038405          238 ----NMKGEYD------RAVEILISL--RRKKFVLLLDDVWE  267 (863)
Q Consensus       238 ----~~~~~~~------~~~~l~~~l--~~k~~LlVlDdv~~  267 (863)
                          .......      .+..+.+++  ++|.+|+++||+-.
T Consensus       138 v~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         138 VSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             EEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence                0111111      122344544  47999999999854

>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=92.91  E-value=0.031  Score=54.07  Aligned_cols=26  Identities=23%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +..||||.|.+|+||||+|+.+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999887766

>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=92.86  E-value=0.039  Score=51.23  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..|+|-|+.|+||||+|+.+++..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999887

>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=92.82  E-value=0.052  Score=52.58  Aligned_cols=57  Identities=12%  Similarity=0.012  Sum_probs=33.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  230 (863)
                      .-+|||-|..|+||||||..+.............++.++..+-+-..+-...+.+..
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~   83 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQF   83 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHT
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhc
Confidence            358999999999999999988766521111112455566544433333334444443

>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=92.68  E-value=0.033  Score=54.91  Aligned_cols=40  Identities=23%  Similarity=0.312  Sum_probs=28.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCC
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKE  216 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  216 (863)
                      .+.|+|.|-||+||||+|..++.... .. .. .++-|.....
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA-~~-G~-rVLlID~DpQ   41 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALA-EM-GK-KVMIVGCDPK   41 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH-HT-TC-CEEEEEECSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHH-HC-CC-CEEEEecCCC
Confidence            46789999999999999988877662 22 22 4666666543

>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=92.61  E-value=0.022  Score=57.54  Aligned_cols=44  Identities=18%  Similarity=0.181  Sum_probs=32.4

Q ss_pred             ccccchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhh
Q 038405          153 EKTVGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       153 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      ..++|.+..+..+.-.....+..-|.+.|.+|+||||||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            46799998777655444332334588999999999999998763

>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=92.42  E-value=0.039  Score=52.16  Aligned_cols=39  Identities=26%  Similarity=0.251  Sum_probs=29.8

Q ss_pred             ceEEEEE-cCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          174 EQTIGLY-GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       174 ~~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      .+||+|+ |-||+||||+|..++....   ..-..++.|....
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D~   40 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDADI   40 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECCC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCCC
Confidence            3789998 8899999999999888773   2223577887653

>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=92.31  E-value=0.026  Score=51.93  Aligned_cols=26  Identities=31%  Similarity=0.505  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            44689999999999999999998765

>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=92.23  E-value=0.032  Score=52.24  Aligned_cols=36  Identities=17%  Similarity=0.234  Sum_probs=26.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      ..-.+++|+|..|+|||||.+.++.-.    ..-.+.+++
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~gl~----~p~sG~I~~   64 (230)
T d1l2ta_          29 KEGEFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYI   64 (230)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             cCCCEEEEECCCCCCcchhhHhccCCC----CCCcceeEE
Confidence            345689999999999999999887654    223455555

>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=92.19  E-value=0.035  Score=52.90  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.|+|-|+.|+||||+|+.+....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999998876

>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=92.18  E-value=0.033  Score=52.51  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|.|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34689999999999999999998654

>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=92.03  E-value=0.047  Score=52.01  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ||+|.|+.|+|||||..++.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            79999999999999999987654

>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=91.96  E-value=0.049  Score=51.95  Aligned_cols=45  Identities=22%  Similarity=0.227  Sum_probs=35.4

Q ss_pred             cccchhhHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          154 KTVGADSKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       154 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +|||....++++.+.+..  ..-.-|.|+|..|+|||++|+.++...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            478988888888887744  222346899999999999999998654

>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=91.93  E-value=0.036  Score=52.47  Aligned_cols=26  Identities=35%  Similarity=0.498  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-..|+|+|..|.|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999988754

>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=91.93  E-value=0.038  Score=52.01  Aligned_cols=27  Identities=33%  Similarity=0.401  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.++--.
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            344789999999999999999998754

>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=91.91  E-value=0.036  Score=53.09  Aligned_cols=36  Identities=28%  Similarity=0.283  Sum_probs=27.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      ..-.+++|+|..|.|||||++.+..-.    ..-.+.+++
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl~----~p~~G~I~~   61 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   61 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcCc----cCCCCCEEE
Confidence            345789999999999999999998644    223455554

>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=91.69  E-value=0.062  Score=48.14  Aligned_cols=34  Identities=21%  Similarity=0.454  Sum_probs=25.9

Q ss_pred             HHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          163 DEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       163 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .++..++.....+ |.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            4566666555555 679999999999999987654

>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=91.66  E-value=0.13  Score=48.88  Aligned_cols=50  Identities=18%  Similarity=0.150  Sum_probs=36.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKI  222 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~  222 (863)
                      .-+++.|+|.+|+||||+|.+++.....   ........+|+......+....
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            4579999999999999999988765411   1123457888887777665444

>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=91.64  E-value=0.046  Score=51.14  Aligned_cols=27  Identities=26%  Similarity=0.289  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|+|||||.+.++.-.
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            345689999999999999999987654

>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=91.63  E-value=0.042  Score=52.45  Aligned_cols=27  Identities=26%  Similarity=0.391  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|.|||||++.+..-.
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            345689999999999999999987654

>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=91.59  E-value=0.045  Score=50.59  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+|.|+|++|+|||||.+.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999998765

>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=91.51  E-value=0.048  Score=51.21  Aligned_cols=27  Identities=26%  Similarity=0.281  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|.|||||.+.+..-.
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            345689999999999999999988654

>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=91.50  E-value=0.049  Score=51.60  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-..++|+|..|.|||||++.+..-.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            345789999999999999999987543

>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=91.41  E-value=0.098  Score=49.64  Aligned_cols=49  Identities=10%  Similarity=0.031  Sum_probs=34.4

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~  221 (863)
                      .-+++-|+|.+|+||||+|.+++.....   ....-..++|++....++...
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            4579999999999999999988765411   011234688888777765433

>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=91.34  E-value=0.05  Score=51.82  Aligned_cols=27  Identities=26%  Similarity=0.367  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|..|+|||||++.+..-.
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            445789999999999999999988765

>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=91.32  E-value=0.05  Score=49.85  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ++++.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            35668999999999999999999864

>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=91.29  E-value=0.045  Score=50.83  Aligned_cols=20  Identities=30%  Similarity=0.280  Sum_probs=18.1

Q ss_pred             EEEEEcCCCChHHHHhhhhh
Q 038405          176 TIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~  195 (863)
                      +|||+|..|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=91.28  E-value=0.043  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987553

>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=91.21  E-value=0.048  Score=51.17  Aligned_cols=33  Identities=18%  Similarity=0.054  Sum_probs=25.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      .+++|+|+.|.|||||.+.++.-.    ..-.+.+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~----~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC----CCCceEEEE
Confidence            478999999999999999998765    223455554

>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=91.11  E-value=0.042  Score=51.30  Aligned_cols=27  Identities=22%  Similarity=0.252  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|.|||||.+.+..-.
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            345689999999999999999998754

>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=91.08  E-value=0.065  Score=49.55  Aligned_cols=23  Identities=39%  Similarity=0.638  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .|+|-|+-|+||||+++.+....
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

>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=91.06  E-value=0.048  Score=48.29  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |+|+|.+|+|||||...+.++.
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999887654

>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=91.03  E-value=0.077  Score=50.12  Aligned_cols=37  Identities=24%  Similarity=0.210  Sum_probs=28.1

Q ss_pred             eEEEEE-cCCCChHHHHhhhhhhccccccCCCCEEEEEEeC
Q 038405          175 QTIGLY-GMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVS  214 (863)
Q Consensus       175 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  214 (863)
                      +||+|+ +-||+||||+|..++.... .  .-..++.+...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la-~--~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG-D--RGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH-H--TTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH-h--CCCCEEEEeCC
Confidence            689999 6799999999999988773 2  22356777754

>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=90.93  E-value=0.083  Score=53.43  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...+..+|+.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4558899999999999999987654

>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=90.82  E-value=0.057  Score=52.44  Aligned_cols=27  Identities=22%  Similarity=0.362  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|+|||||++.+..-.
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            445789999999999999999987654

>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=90.74  E-value=0.055  Score=50.06  Aligned_cols=21  Identities=33%  Similarity=0.357  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhh
Q 038405          175 QTIGLYGMGGVGKITLLKKPN  195 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~  195 (863)
                      -+|||+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998663

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {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: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=90.71  E-value=0.83  Score=44.82  Aligned_cols=95  Identities=16%  Similarity=0.113  Sum_probs=52.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHcCCCcccccccChhhHHHHHHHHhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKLDISDYIWNMKGEYDRAVEILISLRR  255 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  255 (863)
                      -|.|.|..|+||||+.+++....   ... ..++-+.-.....+..         ..................++..|+.
T Consensus       168 nili~G~tgSGKTT~l~al~~~i---~~~-~rivtiEd~~El~l~~---------~~~~~~~~~~~~~~~~~ll~~~lR~  234 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFI---PKE-ERIISIEDTEEIVFKH---------HKNYTQLFFGGNITSADCLKSCLRM  234 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS---CTT-CCEEEEESSCCCCCSS---------CSSEEEEECBTTBCHHHHHHHHTTS
T ss_pred             CEEEEeeccccchHHHHHHhhhc---ccc-cceeeccchhhhhccc---------ccccceeccccchhHHHHHHHHhcc
Confidence            37899999999999999988765   111 2233332222211100         0000001112223345566777887


Q ss_pred             CcEEEEEcccccccccccccccCCCCCCC
Q 038405          256 KKFVLLLDDVWERLDLSKTGVSLSDCQNG  284 (863)
Q Consensus       256 k~~LlVlDdv~~~~~~~~~~~~l~~~~~g  284 (863)
                      ..=-||+..+.+.+.+..+ .+...++.|
T Consensus       235 ~pd~iivgEiR~~ea~~~l-~a~~tGh~g  262 (323)
T d1g6oa_         235 RPDRIILGELRSSEAYDFY-NVLCSGHKG  262 (323)
T ss_dssp             CCSEEEESCCCSTHHHHHH-HHHHTTCSC
T ss_pred             CCCcccCCccCchhHHHHH-HHHHhcCCc
Confidence            7778899999887666543 334444555

>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=90.63  E-value=0.078  Score=53.55  Aligned_cols=27  Identities=19%  Similarity=-0.002  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +..+.+.++|++|+|||++|+.+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            556789999999999999999999887

>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=90.54  E-value=0.061  Score=51.16  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+.|+|-|+-|+||||+++.+....
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            4789999999999999999998876

>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=90.44  E-value=0.059  Score=47.72  Aligned_cols=21  Identities=29%  Similarity=0.215  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=90.30  E-value=0.064  Score=50.67  Aligned_cols=26  Identities=31%  Similarity=0.373  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44689999999999999999998765

>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=90.28  E-value=0.13  Score=47.46  Aligned_cols=35  Identities=20%  Similarity=0.235  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEE
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFV  211 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  211 (863)
                      +.|+|-|+.|+||||+++.+.....  ...+..+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~--~~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH--hCCCCeEEEe
Confidence            5688999999999999999988762  2334444443

>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=90.18  E-value=0.047  Score=51.36  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.+++|+|+.|+|||||++.+..-.
T Consensus        29 ~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          29 ENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            344789999999999999999988754

>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=90.14  E-value=0.066  Score=47.36  Aligned_cols=22  Identities=36%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|.+|+|||||...+.+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6799999999999999987643

>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=90.08  E-value=0.077  Score=49.99  Aligned_cols=27  Identities=30%  Similarity=0.459  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-.++||+|+.|.|||||.+.+..-.
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345789999999999999999998765

>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=90.08  E-value=0.066  Score=47.87  Aligned_cols=21  Identities=38%  Similarity=0.420  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|.+|+|||||+.++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999987654

>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=90.02  E-value=0.07  Score=50.83  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            345689999999999999999887654

>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=90.01  E-value=0.068  Score=47.40  Aligned_cols=21  Identities=38%  Similarity=0.404  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|.+|+|||||+.++.++
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987754

>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=90.00  E-value=0.068  Score=47.26  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887753

>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=89.92  E-value=0.071  Score=50.89  Aligned_cols=26  Identities=23%  Similarity=0.270  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.+++|+|+.|.|||||++.++.-.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            34689999999999999999998765

>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=89.92  E-value=0.073  Score=47.43  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .|+|+|.+|+|||||+.++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=89.91  E-value=0.07  Score=47.54  Aligned_cols=21  Identities=33%  Similarity=0.676  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||...+.+.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999987754

>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=89.88  E-value=0.17  Score=46.79  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -+.|+|-|+-|+||||+++.+....
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4679999999999999999999887

>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=89.86  E-value=0.22  Score=47.32  Aligned_cols=51  Identities=14%  Similarity=0.023  Sum_probs=37.0

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcccc---ccCCCCEEEEEEeCCCCCHHHH
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKFLD---VNHCFDLVIFVAVSKEGNLEKI  222 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~  222 (863)
                      ..-+++.|+|.+|+|||++|.+++.....   ....+..+.|+.....+.....
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            34579999999999999999998764311   1234567888887777664433

>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=89.54  E-value=0.077  Score=47.17  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999987654

>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=89.40  E-value=0.081  Score=46.98  Aligned_cols=23  Identities=30%  Similarity=0.299  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.++|.+|+|||||++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            37899999999999999876543

>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=89.31  E-value=0.082  Score=46.89  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987653

>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=89.27  E-value=0.078  Score=47.23  Aligned_cols=22  Identities=36%  Similarity=0.534  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>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=89.24  E-value=0.083  Score=46.82  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.|+|.+|+|||||...+.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887543

>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=89.23  E-value=0.084  Score=46.80  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.++|.+|+|||||+.++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>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=89.19  E-value=0.094  Score=46.96  Aligned_cols=24  Identities=38%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999864

>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=89.14  E-value=0.098  Score=46.92  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999998865

>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=89.14  E-value=0.49  Score=45.40  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .+..|+|.+|+||||||.+++-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            578899999999999998877653

>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=89.05  E-value=0.11  Score=46.58  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ..-|.|+|.+|+|||||..++...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345789999999999999887654

>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=89.04  E-value=0.088  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987754

>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=88.98  E-value=0.066  Score=48.20  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |+|+|.+|+|||||+..+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998754

>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=88.97  E-value=0.087  Score=47.67  Aligned_cols=21  Identities=33%  Similarity=0.475  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|.+|+|||||+..+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            779999999999999988754

>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=88.93  E-value=0.081  Score=47.34  Aligned_cols=22  Identities=41%  Similarity=0.566  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.++|.+|+|||||...+...
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988654

>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=88.88  E-value=0.092  Score=46.61  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.++|.+|+|||+|...+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999988653

>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=88.87  E-value=0.098  Score=49.61  Aligned_cols=24  Identities=25%  Similarity=0.160  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++|||+|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999987654

>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=88.86  E-value=0.19  Score=43.43  Aligned_cols=27  Identities=26%  Similarity=0.225  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ...-+|.+.|.=|+||||+++.+++..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            344689999999999999999999876

>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=88.81  E-value=0.092  Score=46.89  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999987653

>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=88.81  E-value=0.099  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      +.|+|+|.+|+|||||...+.+.
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            57899999999999999998765

>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=88.76  E-value=0.089  Score=46.99  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987754

>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=88.76  E-value=0.083  Score=49.40  Aligned_cols=26  Identities=35%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .++|..|.|.-|.|||||.+++....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            57899999999999999999987653

>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=88.65  E-value=0.096  Score=48.80  Aligned_cols=49  Identities=8%  Similarity=0.024  Sum_probs=32.0

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccc---cCCCCEEEEEEeCCCCCHHH
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDV---NHCFDLVIFVAVSKEGNLEK  221 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~~~~~~  221 (863)
                      .-+++.|.|.+|+||||+|.+++.+....   ...+....++..........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPER   73 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHH
Confidence            35799999999999999999887654111   12233555665555544433

>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=88.64  E-value=0.093  Score=46.43  Aligned_cols=21  Identities=43%  Similarity=0.458  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=88.63  E-value=0.16  Score=46.92  Aligned_cols=34  Identities=26%  Similarity=0.469  Sum_probs=26.5

Q ss_pred             HHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          162 LDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       162 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ++++.++|.+   +...++|.+|+|||||..++..+.
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            4556666643   567899999999999999987654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {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: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=88.58  E-value=0.077  Score=49.87  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3468999999999999999998763

>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=88.53  E-value=0.094  Score=46.81  Aligned_cols=21  Identities=33%  Similarity=0.387  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987643

>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=88.49  E-value=0.1  Score=46.21  Aligned_cols=21  Identities=33%  Similarity=0.442  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999987654

>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=88.45  E-value=0.13  Score=45.72  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..++ |.++|.+|+|||||..++.+..
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            3455 6699999999999999987543

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.43  E-value=0.083  Score=47.74  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|+|+|.+|+|||||...+.+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~   25 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAK   25 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEEC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999986543

>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=88.42  E-value=0.097  Score=46.59  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||||...+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999987654

>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=88.33  E-value=0.11  Score=46.55  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|..|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999987654

>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=88.33  E-value=0.11  Score=45.59  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.++|.+|+|||||+..+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999877643

>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=88.30  E-value=0.1  Score=46.24  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-|.|+|.+|+|||||...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999987654

>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=88.26  E-value=0.11  Score=47.80  Aligned_cols=24  Identities=17%  Similarity=0.205  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +-|.|+|.+|+|||||..++....
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

>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=88.06  E-value=0.11  Score=46.02  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>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=87.84  E-value=0.12  Score=46.63  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||+|..++..+
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887754

>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=87.83  E-value=0.11  Score=46.48  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678999999999999887754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {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: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=87.78  E-value=0.11  Score=46.82  Aligned_cols=23  Identities=39%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|+|+|.+|+|||||...+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999987653

>d1i2ma_ c.37.1.8 (A:) Ran {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: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.74  E-value=0.099  Score=46.51  Aligned_cols=21  Identities=38%  Similarity=0.570  Sum_probs=17.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+.++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999887654

>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=87.66  E-value=0.12  Score=45.79  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|..|+|||+|+..+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987654

>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=87.49  E-value=0.12  Score=46.86  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||+|.+++...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            689999999999999987654

>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=87.44  E-value=0.12  Score=46.69  Aligned_cols=21  Identities=38%  Similarity=0.425  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|.+|+|||+|...+.++
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999987654

>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=87.42  E-value=0.13  Score=45.31  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.++|.+|+|||||..++....
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999876543

>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=87.35  E-value=0.13  Score=45.60  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999987654

>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=87.24  E-value=0.12  Score=46.97  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.|+|.+|+|||||+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999987754

>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=87.17  E-value=0.13  Score=46.97  Aligned_cols=19  Identities=47%  Similarity=0.583  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHhhhh
Q 038405          176 TIGLYGMGGVGKITLLKKP  194 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v  194 (863)
                      -|.|+|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3779999999999999987

>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=87.05  E-value=0.14  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      --|.|+|.+|+|||||+..+.+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34789999999999999987653

>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=86.97  E-value=0.14  Score=45.75  Aligned_cols=21  Identities=38%  Similarity=0.544  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999987654

>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=86.83  E-value=0.14  Score=45.50  Aligned_cols=22  Identities=36%  Similarity=0.351  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|.++|.+|+|||||+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987653

>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=86.75  E-value=0.15  Score=45.99  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999987754

>d1mkya2 c.37.1.8 (A:173-358) 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=86.74  E-value=0.15  Score=45.95  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHhhhhhhc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      -|+|+|..|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3799999999999999888764

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {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: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=86.70  E-value=0.14  Score=45.98  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      ....|+|+|.+++|||||..++...
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999988654

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G 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: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=86.48  E-value=0.15  Score=44.59  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |+|+|.+|+|||||..++...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999888644

>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=86.43  E-value=0.16  Score=45.03  Aligned_cols=22  Identities=36%  Similarity=0.442  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |.++|.+|+|||||+..+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6788999999999999987643

>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=86.40  E-value=0.16  Score=45.26  Aligned_cols=21  Identities=38%  Similarity=0.613  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999877653

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G 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: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.36  E-value=0.16  Score=45.29  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999876643

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [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: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=86.27  E-value=0.12  Score=46.47  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      --|.++|.+|+|||||..++...
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34679999999999999987654

>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=86.22  E-value=0.15  Score=45.62  Aligned_cols=21  Identities=29%  Similarity=0.292  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|..|+|||+|++.+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999987764

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=85.96  E-value=0.18  Score=44.62  Aligned_cols=23  Identities=22%  Similarity=0.209  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      +-|.|.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45889999999999999987754

>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=85.67  E-value=0.17  Score=45.88  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||+|+..+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887654

>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=85.55  E-value=0.17  Score=46.09  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHhhhhhhc
Q 038405          177 IGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~  197 (863)
                      |.++|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999987544

>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=85.42  E-value=0.25  Score=45.75  Aligned_cols=24  Identities=17%  Similarity=-0.006  Sum_probs=21.0

Q ss_pred             eEEEEEcCC-CChHHHHhhhhhhcc
Q 038405          175 QTIGLYGMG-GVGKITLLKKPNNKF  198 (863)
Q Consensus       175 ~vi~I~G~g-GiGKTtLa~~v~~~~  198 (863)
                      +.+.|.|-| |+||||++..++.-.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            467899998 999999998888777

>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=85.34  E-value=0.19  Score=47.66  Aligned_cols=26  Identities=19%  Similarity=0.350  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      .-.++.|.|.+|+|||++|.+++.+.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34799999999999999999988654

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=85.29  E-value=0.19  Score=44.37  Aligned_cols=23  Identities=30%  Similarity=0.273  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-|.|.|.+|+||||+|..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            45789999999999999887654

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=84.55  E-value=0.21  Score=46.52  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      .-|.++|.+|+|||||++++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999987543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {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: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.18  E-value=0.16  Score=45.26  Aligned_cols=20  Identities=35%  Similarity=0.461  Sum_probs=8.4

Q ss_pred             EEEEcCCCChHHHHhhhhhh
Q 038405          177 IGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~  196 (863)
                      |.|+|.+|+|||||+..+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999987664

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=84.15  E-value=0.23  Score=43.58  Aligned_cols=23  Identities=17%  Similarity=0.199  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHhhhhhhc
Q 038405          175 QTIGLYGMGGVGKITLLKKPNNK  197 (863)
Q Consensus       175 ~vi~I~G~gGiGKTtLa~~v~~~  197 (863)
                      +-|.|.|.+|+||||+|..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45889999999999999887665

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

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: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=82.94  E-value=0.8  Score=46.62  Aligned_cols=102  Identities=15%  Similarity=0.135  Sum_probs=59.9

Q ss_pred             cchhhHHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHc-CCCc
Q 038405          156 VGADSKLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKL-DISD  234 (863)
Q Consensus       156 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l-~~~~  234 (863)
                      .|.....-+.+..+......+|.|.|+.|+||||....+.+...   ..-..+  +++-++...         .+ +...
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~---~~~~~i--~tiEdPiE~---------~~~~~~q  205 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN---SSERNI--LTVEDPIEF---------DIDGIGQ  205 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC---CTTSCE--EEEESSCCS---------CCSSSEE
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhc---CCCceE--EEeccCccc---------ccCCCCe
Confidence            46655544444555555678999999999999999888877651   111222  233333110         00 0000


Q ss_pred             ccccccChhhHHHHHHHHhccCcEEEEEccccccccc
Q 038405          235 YIWNMKGEYDRAVEILISLRRKKFVLLLDDVWERLDL  271 (863)
Q Consensus       235 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~  271 (863)
                      ......+.......++..|+..+=.|++.++.+....
T Consensus       206 ~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta  242 (401)
T d1p9ra_         206 TQVNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETA  242 (401)
T ss_dssp             EECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHH
T ss_pred             eeecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHH
Confidence            0001122234567788888888889999999876443

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=82.90  E-value=0.33  Score=48.72  Aligned_cols=62  Identities=15%  Similarity=0.083  Sum_probs=33.7

Q ss_pred             HHHHHHHhhccCCceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHH
Q 038405          161 KLDEVWGCIEDQSEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEV  225 (863)
Q Consensus       161 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  225 (863)
                      ....+...+.   .++..|.|.+|.||||++..+..........-...+.+.....-....+...
T Consensus       153 Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~  214 (359)
T d1w36d1         153 QKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTES  214 (359)
T ss_dssp             HHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHH
T ss_pred             HHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHH
Confidence            3444444443   3789999999999999886554332111111223456655444333333333

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) 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: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=82.57  E-value=0.26  Score=47.28  Aligned_cols=27  Identities=19%  Similarity=0.105  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          172 QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       172 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +++|-|+|+|.+|.|||||+.++....
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            356789999999999999999886543

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

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: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=82.14  E-value=0.54  Score=46.34  Aligned_cols=25  Identities=28%  Similarity=0.162  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      +-.|.|=|.-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            3468999999999999999999887

>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=82.11  E-value=0.3  Score=45.67  Aligned_cols=41  Identities=15%  Similarity=0.081  Sum_probs=26.9

Q ss_pred             CceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCC
Q 038405          173 SEQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSK  215 (863)
Q Consensus       173 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  215 (863)
                      .-.++-|+|.+|+|||++|.+++.....  ..-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~--~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGII--EFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH--HHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH--hcCCCcccccccC
Confidence            4578999999999999999876543211  1112356665543

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase 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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.05  E-value=0.11  Score=45.51  Aligned_cols=22  Identities=36%  Similarity=0.388  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHhhhhhhcc
Q 038405          177 IGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       177 i~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      |+++|.+|+|||||+.++....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999987643

>d1g41a_ 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=81.72  E-value=0.3  Score=50.54  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=20.7

Q ss_pred             EEEEEcCCCChHHHHhhhhhhcc
Q 038405          176 TIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       176 vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      =|.++|+.|+|||-||+.++...
T Consensus        51 NILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999999865

>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=81.40  E-value=0.48  Score=45.57  Aligned_cols=53  Identities=15%  Similarity=0.142  Sum_probs=34.7

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhhccccccCCCCEEEEEEeCCCCCHHHHHHHHHHHc
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNNKFLDVNHCFDLVIFVAVSKEGNLEKIQEVIRKKL  230 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  230 (863)
                      -.++.|.|.+|+||||+|.+++.+. .....+ .+++++.-  .+..++...++...
T Consensus        35 G~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQALQW-GTAMGK-KVGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH-HHTSCC-CEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHhh-hhhccc-ceeEeeec--cchhhHHhHHHHHh
Confidence            3578899999999999999888664 112222 35555543  45666666665543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

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: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=80.98  E-value=0.6  Score=44.33  Aligned_cols=39  Identities=31%  Similarity=0.399  Sum_probs=27.5

Q ss_pred             hHHHHHHHhhcc--CCceEEEEEcCCCChHHHHhhhhhhcc
Q 038405          160 SKLDEVWGCIED--QSEQTIGLYGMGGVGKITLLKKPNNKF  198 (863)
Q Consensus       160 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  198 (863)
                      ..+.++...+.+  ..---|.++|..|+|||||...+..+.
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            344455555543  233457899999999999999998754

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [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: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=80.31  E-value=0.39  Score=45.77  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCChHHHHhhhhhh
Q 038405          174 EQTIGLYGMGGVGKITLLKKPNN  196 (863)
Q Consensus       174 ~~vi~I~G~gGiGKTtLa~~v~~  196 (863)
                      +|-|+|+|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            47799999999999999998743